All courses

This course is designed to give you the foundation knowledge of what is held in Amicus and help you get started using it. It will cover:

• How to view and edit contact records
• Where to find employment, education, relationships, giving details and interests
• Recording actions and interactions
• An overview of the prospect solicitation cycle and how to complete contact reports
• How to create a contact records
• Corresponding with individuals
• How to view reports

This is a pilot run of the Amicus Basics course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

This session is a working session to help you add and edit Biographical Details, add Addresses, and link Business Addresses in Amicus.

This course covers the communications functionality within the Amicus system:

• Sending mass communications
• Corresponding with individuals or small groups
• Managing salutations and contact preferences
• Recording famous individuals, social media and CAM contributors
• Managing templates and managing the Communications working group

This is a pilot run of the Amicus Communications course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

Learn why its important to record Contact Reports in Amicus. You will learn to find the correct contact, create an Action, then create a contact report which can then be linked to a solicitation cycle.

This course covers the system steps to add a new contact record in Amicus:

• Create a contact
• Updating core biographical information
• Primary and secondary categories
• Data protection essentials

This course shows you how to create bespoke reports containing complex and detailed data sets.

This session will give you an overview updates are received by Cambridge University Development and Alumni Relations. We will also look at how updates are recorded (with an overview of key fields in Amicus). You will also be shown how to download and filter the monthly data exchange reports.

This course covers the system steps and process for maintaining:

• Donor list
• Recognition groups
• VC letters

This course is a short refresher session of the Introduction to Amicus for new College starters course. This is ideal for anyone who completed the introductory course and either hasn't used Amicus since or would like some reminders of where to find essential information.

Following completion of the Amicus Basics course, this session will give you give you detailed knowledge of:

• Creating an event, budgets, resources and sending invitations
• Managing bookings, dietary requirements and attaching documents
• Creating a guest list, name badges and attendee itineraries

For users unfamiliar with the Events module in Amicus, this overview will cover many of the major areas that are used by event professionals.

We will cover the following areas:

• New Event workflow in Amicus
• Booking and Invite form
• Guests at Events

This is a pilot run of the Amicus Events course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

This session includes:

• An introduction to Amicus, why we're changing systems and the journey so far
• A demo of the system
• What's happening in the next few months
• Opportunity to ask any questions

This course will give you detailed knowledge and hands-on experience for:

• Gift aid declarations
• Day book procedure and creating batches
• Destination and source codes
• Adding pledges, payment files, online batches and gift aid claims
• Recording gifts in kind and Canadian tax receipts

This course will go through the Amicus finance processes, covering:

• Gift aid declarations
• Day book procedure and creating batches
• Destination and source codes
• Adding pledges, payment files, online batches and gift aid claims
• Recording direct debits and standing orders
• Recording gifts in kind and Canadian tax receipts

For users unfamiliar with the Finance module in Amicus, this overview will cover many of the major areas that are used by gift services professionals. We will look at the work that you do in your team and how it benefits the users of this area in Amicus. We will cover the following areas:

• Batch
• Pledges
• Gifts in Kind
• Destination codes

This course is designed to give you the additional Amicus knowledge required to complete tasks actioned by the Database team. It will cover:

• How to update a deceased record
• How to merge records
• How to update gender changes
• How to add and update sticky notes

There will be time allocated at the end of the course for you to practice what you have learnt in the Amicus Basics course and apply it to Database Team tasks.

This is a pilot run of the Amicus for Database Team course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

This is a pilot run of the Amicus for Fundraisers and PIA course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

Following completion of the Amicus Basics course, this session will give you detailed knowledge of:

• Information held at prospect level
• How to create and edit the solicitation workflow stages
• What good looks like for contact reports
• How to access and create contact reports from your phone or tablet
• Wealth ratings and prospect research tools

This course covers the foundation knowledge required to get you started using Amicus. The following topics are covered in the course:

• An overview of Amicus and it's uses
• How to log in and navigate
• Viewing contact and prospect records
• How to update biographical details
• A look at contact preferences
• How to run reports

This course is designed to get started in using Amicus. It will cover:

• An overview of the functional areas in the system
• Navigation and searching for records
• How to update contact records
• How to create Actions and Interactions
• Adding reports to your dashboard

Have you struggled with any fundraising aspect of Amicus? Do you have any burning questions you have not found the answer to? Attend this interactive session with Katie Green and Anabela Ali to talk about all things fundraising related in Amicus. Come along with any questions or challenges you have faced! Snacks will be available.

For users unfamiliar with the Fundraising module in Amicus, this overview will cover many of the major areas that are used by development professionals. We will look at the work that you do in your team and how it benefits the users of this area in Amicus. We will cover the following areas:

• Contact Reports
• Solicitation Cycles
• Ratings
• Legacies
• Shared Prospects
• Prospects and assigning fundraisers

This course covers the system steps and process for processing gift acknowledgements within Amicus.

Welcome to the first Amicus Hackathon where we will aim to specify the changes we want to see to enable us to view donor giving information in an easier and more accurate way.

In this interactive session we will divide into cross functional groups. Each group will generate ideas of what data is required and how it should be viewable. We will then share proposals and agree on a specification to take forward for future development.

This webinar is aimed at the user who hasn't used Amicus in while, and needs a quick refresh on how to find records and navigate around Amicus.

Learn how to export the data you need from Amicus. Using Amicus Reporting Services you will be able to view and run a number of pre built reports created for the institutions that use Amicus. You will also use Amicus Reporting Services to export data you have selected using a saved Yellow Box Search.

This course covers the system steps to adding and recording correspondence with individuals in Amicus:

• Writing a letter through Amicus
• Writing an email through Amicus
• Recording correspondence from individuals within Amicus

Learn how to use the mailing module to create mass mailings. We will use Amicus CRM to create the mailing and Amicus Reporting Services to export the data.

This course covers the system steps involved in creating and maintaining:

• Alumni groups
• Boards
• Committees

This course covers the system steps and process required when de-duping and merging records within Amicus.

Learn about the new user interface for Amicus in this short presentation

Learn about the new user interface for Amicus in this short presentation

This course gives you a high level overview of the Amicus system with some hands-on experience for the following:

• How to log in and log out
• How to personalise your dashboard
• How to view reports

This is a pilot run of the Amicus Overview course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

This course covers the prospect management functionality within Amicus:

• Identifying a prospect in Amicus
• Wealth ratings in Amicus
• Due diligence data in Amicus

The Prospect Information & Analysis team will give you an overview on key prospect fields and where to find them, they will also be on hand to answer any questions regarding prospect information in Amicus. Do you have any questions around CUDAR's wealth ratings? Do you want to know more about all things fundraising related in Amicus?

If so, come along to this interactive session with members of the Prospect Information and Analysis team who will be happy to answer any questions around this area of Amicus.

Submit any questions you have to amicussupport@admin.cam.ac.uk mentioning this session in the subject line.

For users unfamiliar with the reports area in Amicus, this give you a quick overview of how reports are used in Amicus. We will look at the work that you do in your team and how it goes towards generating valuable reports used by all users of Amicus We will cover the following areas:

• Amicus Reporting Services
• Dashboard
• The report button within Amicus

Please join Sam Grimley to find out what's coming up in the Amicus Development Programme. In this session we will showcase the developments we are working on over the next nine months, we'll share other developments that have been requested but not scheduled yet, and answer any questions you have about these or how to request further changes.

This course covers the system steps involved in creating solicitation cycles. The course gives you hands on experience of adding details for:

• Setting up a solicitation cycle
• Adding a purpose
• Adding a fundraiser
• Adding a strategy
• Requesting due diligence

Find out what standard reports are available to Colleges and where to find them in this short session.

• Learn how to customise your dashboard
• access the new report launched by the College Relations team

This course covers the system steps required to record stewardship details in Amicus.

This is a pilot run of the Amicus Stewardship course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

This is an interactive overview session led by teams, showcasing how they are using Amicus and where you can view information that may be useful to you in your role.

If you wish to know more about how other teams use Amicus, use the Register interest box on the left hand side and please state in the Special Requirements section which team you would like an overview with.

This course is for development and alumni relations staff who are delivering Amicus training to their functional areas as part of the system rollout. This workshop is interactive and will cover:

• how the Amicus training sessions will be structured
• familiarisation of the training materials that will be used
• some practical training on how to lead an IT training session

This course covers the system steps to add or edit biographical data in Amicus:

• Adding and editing addresses
• Adding and editing email and phone numbers
• Updating primary contact details
• Adding and editing other biographical information

This course covers the system steps required for updating deceased or gone-away information:

• Updating a record with deceased information
• Updating a record with gone-away information

Following completion of the Amicus Basics course, this session will give you detailed knowledge of:

• Creating volunteers and opportunities
• Assigning volunteers to an opportunity and document checks
• Creating a board or committee
• Withdrawing or deactivating a volunteer
• Coding a speaker
• Creating an alumni group, updating alumni group records and the governance process

For users unfamiliar with the Volunteer module in Amicus, this overview will cover many of the major areas that are used by volunteer professionals. We will look at the work that you do in your team and how it benefits the users of this area in Amicus. We will cover the following areas:

• Activity
• Opportunities
• Creating a Volunteer

This is a pilot run of the Amicus Volunteers course. Attendance will be by invitation only. For enquiries about this course, please contact Sam Grimley, Will Dixon or Sue Bourne.

Learn why its important to record Contact Reports in Amicus. You will learn to find the correct contact, create an Action, then create a contact report which can then be linked to a solicitation cycle.

Add-ins are components which you can add to your Microsoft Office applications in order to provide extra features and functionality. There are three add-ins for Microsoft Office (Word, Outlook and Excel), which you will need to install if you want to be able to use features such as creating letter templates, logging documents and emails back into Amicus and using the Select From Excel found in the Yellow Box Search option

Find out what standard reports are available to Colleges and where to find them in this short session.

• Learn how to customise your dashboard
• access the new report launched by the College Relations team

This course covers the yellow box search functionality within Amicus:

• Creating simple data searches using yellow box searches
• Saving a search
• Transferring search data to a report
• Reporting rules and best practice

Yellow Box Searching is 'advanced searching' in Amicus. You can use it to find specific selections of data or contacts from within Amicus. Many Amicus users use yellow box search in the first step to creating a mailing or inviting contacts to an event. This session will be an introduction to Yellow Box Searching for anyone who has just gained access to Amicus.

This session is a working session to help you use yellow box searching for your own data requests. We will cover:

• Creating a search
• Checking the results
• Saving the search

Join Clare Hall in a guided (or self-guided) mindful wander and outdoor meditation, enjoying the College’s beautiful grounds and gardens. Mindfulness is about purposely paying attention in the present moment, noticing our surroundings and what we are doing, rather than being caught in thinking about the past or future. You’re warmly invited to take in the sights, sounds and fragrances of Clare Hall’s green spaces this summertime. The guided session will begin with mindful sculpture sketching and tree gazing, before heading over to West Court for a short guided meditation, after which participants will be free to roam our gardens.

Detail on activities:

Mindful sculpture sketching: we will provide paper and pens for a short mindful sketching exercise, in which participants are invited not to look at the paper and to simply look very closely at a sculpture and sketch what they most notice. You may be surprised by your creation!

Tree gazing: walking along Herschel Road we will pause and look carefully at the large, leafy trees, listening to any sounds and wildlife we may notice.

Guided meditation: once at West Court we will lay down or sit on the grass and a Clare Hall staff member will invite attendees to follow a short guided body scan meditation, focusing on the face, shoulders, hands and feet as applicable.

Free to roam: once we have completed the above activities, you are very welcome to wander our gardens and grounds freely, leaving at a time to best suit your schedule.

Self-guided option: You can also enjoy a self-guided wander if you’d prefer to practice mindfulness solo or with your friends. Please sign up via Eventbrite to receive a digital copy of the Mindful Wander guide, or pick up a paper copy from our Porters’ Lodge.

Please wear comfortable shoes and bring a bottle of water or other refreshment with you.

Clare Hall is a college for advanced study at the University of Cambridge, located close to the University Library and neighbouring Robinson College.

This session introduces a variety of analytical strategies, with a focus on Social Network Analysis, the most widely used and abused method for analysing and visualising digital and social media data. At the end of this session, you will be familiar with the basic concepts, techniques and measures of social network analysis.

This short session will provide an understanding of the principles, tools and techniques involved in Process Analysis with a view to improving business process effectiveness and efficiency. Delegates will have the opportunity to practice using the techniques that they learn via exercises designed to be enjoyable and thought provoking.

The course refers to the methodology used in conjunction with Triaster process mapping software available to users across the University of Cambridge.

This short session will provide an understanding of the principles, tools and techniques involved in Process Analysis with a view to improving business process effectiveness and efficiency. Delegates will have the opportunity to practice using the techniques that they learn via exercises designed to be enjoyable and thought provoking.

This short session will provide an understanding of the principles, tools and techniques involved in Process Analysis with a view to improving business process effectiveness and efficiency. Delegates will have the opportunity to practice using the techniques that they learn via exercises designed to be enjoyable and thought provoking.

The course refers to the methodology used in conjunction with Triaster process mapping software available to users across the University of Cambridge.

This week-long course is aimed at people with little or no experience using statistical analyses in research. It introduces participants to core concepts in statistics and experimental design, aimed at ensuring that the resulting data is able to address the research question using appropriate statistical methods.

The interactive course gives participants a hands-on, applied foundation in statistical data analysis and experimental design. Group exercises and discussions are combined with short lectures that introduce key theoretical concepts. Computational methods are used throughout the course, using the R programming language. Formative assessment exercises allow participants to test their understanding throughout the course and encourage questions and critical thinking.

By the end of the course participants will be able to critically evaluate and design effective research questions, linking experimental design concepts to subsequent statistical analyses. It will allow participants to make informed decisions on which statistical tests are most appropriate to their research questions. The course will provide a solid grounding for further development of applied statistical competencies.

If you do not have a University of Cambridge Raven account please book or register your interest here.

In this course you will acquire practical skills in RNA-seq data analysis. You will learn about quality control, alignment, and quantification of gene expression against a reference transcriptome. Additionally, you will learn to conduct downstream analysis in R, exploring techniques like PCA and clustering for exploratory analysis. The course also covers differential expression analysis using the DESeq2 R/Bioconductor package. Furthermore, the course covers how to generate visualisations like heatmaps and performing gene set testing to link differential genes with established biological functions or pathways.

If you do not have a University of Cambridge Raven account please book or register your interest here.

• ♿ The training room is located on the first floor and there is currently no wheelchair or level access.
• Our courses are only free for registered University of Cambridge students. All other participants will be charged according to our charging policy.
• Attendance will be taken on all courses and a charge is applied for non-attendance, including for University of Cambridge students. After you have booked a place, if you are unable to attend any of the live sessions, please email the Bioinfo Team.
• Further details regarding eligibility criteria are available here.
• Guidance on visiting Cambridge and finding accommodation is available here.

Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a method used to identify binding sites for transcription factors, histone modifications and other DNA-binding proteins across the genome. In this course, we will cover the fundamentals of ChIP-seq data analysis, from raw data to downstream applications.

We will start with an introduction to ChIP-seq methods, including important considerations when designing your experiments. We will cover the bioinformatic steps in a standard ChIP-seq analysis workflow, covering raw data quality control, trimming/filtering, mapping, duplicate removal, post-mapping quality control, peak calling and peak annotation. We will discuss metrics used for quality assessment of the called peaks when multiple replicates are available, as well as the analysis of differential binding across sample groups. Throughout the course we will also cover tools and packages that can be used for visualising and exploring your results.

If you do not have a University of Cambridge Raven account please book or register your interest here.

• Our courses are only free for registered University of Cambridge students. All other participants will be charged according to our charging policy.
• Attendance will be taken on all courses and a charge is applied for non-attendance, including for University of Cambridge students. After you have booked a place, if you are unable to attend any of the live sessions, please email the Bioinfo Team.
• Further details regarding eligibility criteria are available here.

Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a method used to identify binding sites for transcription factors, histone modifications and other DNA-binding proteins across the genome. In this course, we will cover the fundamentals of ChIP-seq data analysis, from raw data to downstream applications.

We will start with an introduction to ChIP-seq methods and cover the bioinformatic steps in processing ChIP-seq data. We will then introduce the use of the graphical program SeqMonk to explore and visualise your data. Finally, you will perform peak calling and perform differential enrichment analysis.

If you do not have a University of Cambridge Raven account please book or register your interest here.

• ♿ The training room is located on the first floor and there is currently no wheelchair or level access.
• Our courses are only free for registered University of Cambridge students. All other participants will be charged according to our charging policy.
• Attendance will be taken on all courses and a charge is applied for non-attendance, including for University of Cambridge students. After you have booked a place, if you are unable to attend any of the live sessions, please email the Bioinfo Team.
• Further details regarding eligibility criteria are available here.
• Guidance on visiting Cambridge and finding accommodation is available here.

This course will cover all aspects of the analysis of DNA methylation using sequencing, including primary analysis, mapping and quality control of BS-Seq data, common pitfalls and complications.

It will also include exploratory analysis of methylation, looking at different methods of quantitation, and a variety of ways of looking more widely at the distribution of methylation over the genome. Finally the course will look at statistical methods to predict differential methylation.

The course comprises of a mixture of theoretical lectures and practicals covering a range of different software packages.

If you do not have a University of Cambridge Raven account please book or register your interest here.

• ♿ The training room is located on the first floor and there is currently no wheelchair or level access.
• Our courses are only free for registered University of Cambridge students. All other participants will be charged according to our charging policy.
• Attendance will be taken on all courses and a charge is applied for non-attendance, including for University of Cambridge students. After you have booked a place, if you are unable to attend any of the live sessions, please email the Bioinfo Team.
• Further details regarding eligibility criteria are available here.
• Guidance on visiting Cambridge and finding accommodation is available here.

This workshop focuses on expression proteomics, which aims to characterise the protein diversity and abundance in a particular system. You will learn about the bioinformatic analysis steps involved when working with these kind of data, in particular several dedicated proteomics Bioconductor packages, part of the R programming language. We will use real-world datasets obtained from label free quantitation (LFQ) as well as tandem mass tag (TMT) mass spectrometry. We cover the basic data structures used to store and manipulate protein abundance data, how to do quality control and filtering of the data, as well as several visualisations. Finally, we include statistical analysis of differential abundance across sample groups (e.g. control vs. treated) and further evaluation and biological interpretation of the results via gene ontology analysis. By the end of this workshop you should have the skills to make sense of expression proteomics data, from start to finish.

If you do not have a University of Cambridge Raven account please book or register your interest here.

• ♿ The training room is located on the first floor and there is currently no wheelchair or level access.
• Our courses are only free for registered University of Cambridge students. All other participants will be charged according to our charging policy.
• Attendance will be taken on all courses and a charge is applied for non-attendance, including for University of Cambridge students. After you have booked a place, if you are unable to attend any of the live sessions, please email the Bioinfo Team.
• Further details regarding eligibility criteria are available here.
• Guidance on visiting Cambridge and finding accommodation is available here.

This advanced course will cover high-throughput sequencing data processing, ChIP-seq data analysis (including alignment, peak calling), differences in analyses methods for transcription factors (TF) binding and epigenomic datasets, a range of downstream analysis methods for extracting meaningful biology from ChIP-seq data and will provide an introduction to the analysis of open chromatin with ATAC-seq and long-distance interactions with chromosomal conformation capture based Hi-C datasets.

Materials for this course can be found here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

This course provides an introduction to the tools available through the Bioconductor project for manipulating and analysing high-throughput sequencing (HTS) data. We will present workflows for the analysis of ChIP-Seq and RNA-seq data starting from aligned reads in bam format. We will also describe the various resources available through Bioconductor to annotate and visualize HTS data, which can be applied to any type of sequencing experiment.

The course timetable is available here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

PLEASE NOTE that until further notice, due to the evolving situation with Coronavirus no courses will be offered as classroom based at the Training Facility. The Bioinformatics Team will be teaching the course live online in conjunction with the presenters.

SeqMonk is a graphical program for the visualisation and analysis of large mapped sequencing datasets such as ChIP-Seq, RNA-Seq, and BS-Seq.

The program allows you to view your reads against an annotated genome and to quantitate and filter your data to let you identify regions of interest. It is a friendly way to explore and analysis very large datasets.

This course provides an introduction to the main features of SeqMonk and will run through the analysis of a couple of different datasets to show what sort of analysis options it provides.

Further information is available here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

This course provides an introduction to the tools available through the Bioconductor project for manipulating and analysing bulk RNA-seq data. We will present a workflow for the analysis RNA-seq data starting from aligned reads in bam format and producing a list of differentially-expressed genes. We will also describe the various resources available through Bioconductor to annotate, visualise and gain biological insight from the differential expression results.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

Recent technological advances have made it possible to obtain genome-wide transcriptome data from single cells using high-throughput sequencing (scRNA-seq). Even though scRNA-seq makes it possible to address problems that are intractable with bulk RNA-seq data, analysing scRNA-seq is also more challenging.

In this course we will be surveying the existing problems as well as the available computational and statistical frameworks available for the analysis of scRNA-seq.

If you do not have a University of Cambridge Raven account please book or register your interest here.

• ♿ The training room is located on the first floor and there is currently no wheelchair or level access.
• Our courses are only free for registered University of Cambridge students. All other participants will be charged according to our charging policy.
• Attendance will be taken on all courses and a charge is applied for non-attendance, including for University of Cambridge students. After you have booked a place, if you are unable to attend any of the live sessions, please email the Bioinfo Team.
• Further details regarding eligibility criteria are available here.
• Guidance on visiting Cambridge and finding accommodation is available here.

This course focuses on methods for the analysis of small non-coding RNA data obtained from high-throughput sequencing (HTS) applications (small RNA-seq). During the course, approaches to the investigation of all classes of small non-coding RNAs will be presented, in all organisms.

Day 1 will focus on the analysis of microRNAs and day 2 will cover the analysis of other types of small RNAs, including Piwi-interacting (piRNA), small interfering (siRNA), small nucleolar (snoRNA) and tRNA-derived (tsRNA).

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

Would you like to get some more teaching experience? The Open University (the UK’s largest distance-learning University) would like to offer Cambridge postdocs the opportunity to gain experience tutoring on their courses. They can offer:

• Flexible teaching opportunities to suit your workload and preferences
• The chance to support students from a diverse range of backgrounds
• Training and support to teach through a variety of media, which is becoming increasingly valued on the academic job market.

Come along and find out more about what is on offer, and how you can get involved. Jane Jones, Associate Dean at the Open University, will lead the session, which will include input from former Cambridge postdocs who have taken up this experience.

This webinar is an Introduction to Biological Networks, their types, and applications. It will include two of the most commonly used open source Network Visualisation Platforms (R-igraph and Cytoscape) with step-wise protocols for creating and visualising your own data as a network. It will present some of the major layout algorithms, visual styles and tips for effective visualisation, with examples from biology revealing how these can improve analysis and provide insights.

The webinar will be presented in the form of a lecture as well as a tutorial with step-wise screenshots that enable listeners to emulate simple Network creation and analysis. Please note that this is a webinar and not a coding exercise. Links to publicly available resources and hands-on tutorials will be shared with you for further reading and practice.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

The Critical Reading course aims to improve students' ability to read critically and evaluate sources, as well as giving helpful tips about productive reading, note taking and providing a checklist of questions to help them with their reading going forward. It is suitable for all students but aimed mostly at undergraduates.

This workshop session aims to address the following:

• What is critical reading?
• Reading productively
• Reading critically
• Effective note-taking techniques

The course will be a mixture of front-led instruction and interactive small group discussions.

R is a free, software environment for statistical and data analysis, with many useful features that promote and facilitate reproducible research.

In this course, we introduce the R language, and cover basic data manipulation and plotting. We explore more advanced data analysis techniques using the packages dplyr and ggplot. Finally we introduce the concept of reproducible research, and how this may be assisted using 'literate programming'—combining documentation with code.

After the course you should feel confident to start exploring your own dataset, using the materials and references provided.

Sessions

If you book onto this course you must attend all of the sessions as detailed below. Failure to attend a session or cancellation of your place less than 48 hours before the start of the first session will result in an administrative charge of £50.

Please ensure you have permission from your supervisor to attend this course before you make your booking!

Trainers

Dr Michael Grayling, MRC Biostatistics Unit

Dr Simon Frost, Department of Veterinary Medicine

Dr Matt Castle, GSLS

Through the use of real world examples and the JMP, JMP Pro, and JMP Genomics software, we will cover best practices used in both industry and academia today to visually explore data, plan biological experiments, detect differential expression patterns, find signals in next-generation sequencing data and easily discover statistically appropriate biomarker profiles and patterns.

The training room is located on the first floor and there is currently no wheelchair or level access available to this level.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

This training is intended for staff and post graduate students who regularly use DSE to help prevent or reduce the risk of possible health problems arising from computer use. The training is also aimed at those responsible within departments for assisting with the DSE risk assessment process. The course will provide an understanding of the DSE Regulations 1992 (as amended 2002) and discuss employer's and employee's duties regarding the assessment of DSE workstations. There will be theory and a practical demonstration. The training will allow time to discuss some of the common health problems and concerns that may be associated with poor workstation set-up with examples of possible solutions.

This session provides an overview of the extensive e-resources available to Divinity Undergraduates, including e-books, e-journals, databases and the use of Moodle.

This short course introduces Embodied Inquiry as a research method interested in knowledge generated through the body, not just knowledge of the body. Embodied Inquiry has gained traction as a creative research method capable of challenging the mind-body split and exploring the possible role of the body in research, both for the researcher and for participants. The course will provide a broad overview of the theoretical grounding for embodied inquiry, what embodied inquiry can look like within the social sciences as well as the benefits and pitfalls of embodied inquiry as a method. In addition, the course will provide opportunities to consider how embodied inquiry might relate to individual’s research projects and identifying where to find out more about embodied inquiry.

This session provides an overview of the extensive e-resources relevant to Theology, Religious Studies and the Philosophy of Religion, including e-books, e-journals, databases and electronic legal deposit materials (journal articles and monographs).

This session provides an introduction to the use of IDiscover (the University Library catalogue), for new Postgraduate students and Academic staff, demonstrating the main functions of the catalogue and showing how to make the most effective use of its capabilities for locating books and journals in print and electronic form.

This session provides an introduction to the use of IDiscover (the University Library catalogue), for new Undergraduate students, demonstrating the main functions of the catalogue and showing how to make the most effective use of its capabilities for locating books and journals in print and electronic form.

Analysis of whole genome data unearths a multitude of variants of different classes, which need to be filtered, annotated and validated to arrive at a causative variant for a disease. The current short length sequences, whilst being excellent at identifying single nucleotide variants and short insertions/deletions, struggle to correctly map structural variants (SVs). Long-read sequencing technologies offer improvements in the characterisation of genetic variation and regions that are difficult to assess with short-read sequences.

The aim of this course is to familiarise participants with long read sequencing technologies, their applications and the bioinformatics tools used to assemble this kind of data. Lectures will introduce this technology and provide insight into methods for the analysis of genomic data, while the hands-on sessions will allow participants to run analysis pipelines, focusing on data generated by the Oxford Nanopore Technologies (ONT) platform.

The training room is located on the first floor and there is currently no wheelchair or level access available to this level.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

THIS COURSE IS NOT RETURNING IN ITS CURRENT FORM. PLEASE CHECK OUR WEBSITE FOR MORE INFORMATION.

Machine learning gives computers the ability to learn without being explicitly programmed. It encompasses a broad range of approaches to data analysis with applicability across the biological sciences. Lectures will introduce commonly used algorithms and provide insight into their theoretical underpinnings. In the practicals students will apply these algorithms to real biological data-sets using the R language and environment.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We aim to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout.

This course aims to give you an introduction to the basics of Matlab. During the two day course we will use a practical based approach to give you the confidence to start using Matlab in your own work. In particular we will show you how to write your own scripts and functions and how to use pre-written functions. We will also explore the many ways in which help is available to Matlab users. In addition we will cover basic computer programming in Matlab to enable you to write more efficient scripts.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here.

• Would you like to share your research findings with the international academic community, without paywall restrictions?

• Would you like to boost citations of your work?

• Did you know that funders recognise the benefits of Open Access and most now require it as a condition of their grants?

These are questions for postgraduate students at all stages of their research.

During this one hour presentation I will introduce you to the challenging and diverse topic of regulatory affairs in the pharmaceutical industry and cover some of the aspects we are faced with day to day in the country role. In particular we will look at some of the issues faced with fraudulent and counterfeit medicines and when looking at promotional affairs and product claim development, as these are the two topics for a potential project with Gilead.

About Gilead Sciences Gilead is one of the world's most successful biotech companies with a current market capitalisation of over $150 billion, Gilead Sciences Inc. (www.gilead.com) is a leading research-based biopharmaceutical company which discovers, develops and commercialises innovative medicines in life-threatening diseases. Gilead's primary areas of focus include HIV/AIDS, liver diseases, respiratory diseases, cardiovascular/metabolic diseases, inflammation and oncology

About Alan Collins Alan has 18 years of experience in the pharmaceutical industry and is a Director of Regulatory Affairs at Gilead Sciences. Alan's experience covers the many diverse areas of regulatory affairs, plus pricing and reimbursement, medical affairs, business conduct and auditing - he has never had two working days the same and enjoys the variety and challenge of his role.

For late sign ups here is the zoom link:

https://cam-ac-uk.zoom.us/j/94226642364?pwd=VGJPbzhjNE5rRFlxQWoxNTN3amUxdz09 Meeting ID: 942 2664 2364Passcode: 052998

An Introduction to Research Data Management Skills with Dr Curtis Sharma

Simply put, research data is anything that helps to eventually form the basis of your research output. The integrity of our research outputs therefore depends on the integrity of our data. This is one reason why Increased importance is being placed on research data management (RDM). Managing your research data well brings other benefits, however. It helps in structuring your research project, keeping your data safe and secure, making it easier to share data during and after your project, and it is simply good academic practice. In these sessions we will explore what we mean by RDM, looking at storage and backup, organisation, archiving, and sharing. In the first session we will work to achieve a strong basic understanding of RDM. In the second session, we’ll look at these in more detail. 

The aim of this course is to introduce participants to the basics of statistical analysis and the open source statistical software R, a free software environment for statistical computing and graphics.

Participants will actively use R throughout the course, during which they will be introduced to principles of statistical thinking and interpretation by example, exercises and discussion about a range of problems. The examples will be used to present a variety of statistical concepts and techniques, with no focus on any specific discipline.

Important information: We have 12 configured laptops for use at the workshop. After these laptops have been allocated, participants will either need to share, or bring their own. These laptops will be allocated to the first individuals to express an interest in using them. When booking, please indicate under "Special requirements" if you wish to use one of the 12 laptops or bring your own. Participants bringing their own laptop will be given instructions on what software to install.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register interest by linking here.

An Introduction to R: Software For Statistical Analysis, with Dr Simon R. White, MRC Biostatistics Unit, and Dr Adam P. Wagner, University of Cambridge.

GNU R is (freely) available for all major platforms (Microsoft Windows, Linux, Mac, etc.) and is growing in popularity in academia and beyond for carrying out statistical analysis and data manipulation.

The aim of the course is to introduce participants to the basics of statistical analysis and the open source statistical software GNU R.

Participants will actively use R throughout the course, during which they will be introduced to principles of statistical thinking and interpretation by example, exercises and discussion about a range of problems. The examples will be used to present a variety of statistical concepts and techniques, with no focus on any specific discipline.

Participants Without a Raven Password: If you do not have a Raven's account and would like to attend this course, or have other booking queries, please email Adam Wagner (apw40@medschl.cam.ac.uk).

This course will focus on the structure of good scientific writing, first at the micro-level of sentences and paragraphs and then at the macro-level of abstracts and entire papers. Writing exercises will form an important part of the day. We will look at into the practical process of writing, the nature of scientific publishing and the importance of editing. The day will finish with a group editing session in which the students apply the ideas they've learnt to editing each other's work. For this students will write a 300-word abstract about their mini-dissertation in advance. The course instructors are Mark Buchanan and Justin Mullins, two highly experienced scientific writers/editors.

Because pre-course work is required, bookings must be made by 9 Jan 2015 and cancellations cannot be accepted thereafter.

This course is aimed at those new to programming and provides an introduction to programming using Perl.

During this course you will learn the basics of the Perl programming language, including how to store data in Perl’s standard data structures such as arrays and hashes, and how to process data using loops, functions, and many of Perl’s built in operators. You will learn how to write and run your own Perl scripts and how to pass options and files to them. The course also covers sorting, regular expressions, references and multi-dimensional data structures.

The course will be taught using the online Learning Perl materials created by Sofia Robb of the University of California Riverside.

The course website providing links to the course materials is here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

Please note that this course has been discontinued and has been replaced by the Introduction to R for biologists.

R is a highly-regarded, free, software environment for statistical analysis, with many useful features that promote and facilitate reproducible research.

In this course, we give an introduction to the R environment and explain how it can be used to import, manipulate and analyse tabular data. After the course you should feel confident to start exploring your own dataset using the materials and references provided.

The course website providing links to the course materials is here.

Please note that although we will demonstrate how to perform statistical analysis in R, we will not cover the theory of statistical analysis in this course. Those seeking an in-depth explanation of how to perform and interpret statistical tests are advised to see the list of Related courses. Moreover, those with some programming experience in other languages (e.g. Python, Perl) might wish to attend the follow-on Data Analysis and Visualisation in R course.

This event is supported by the BBSRC Strategic Training Awards for Research Skills (STARS) grant (BB/P022766/1).

The training room is located on the first floor and there is currently no wheelchair or level access available to this level.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register your interest by linking here.

This practical programme is only for those who are scheduled to begin supervising in the next few months; it is not for those who - at this point - have a general interest in learning more about supervisions but have not arranged to start supervising.

This workshop is the second component of a three-part programme, which is designed to be completed in the following order:

1. A self-paced online module containing information on the Cambridge supervision system and introducing the principles and practices of effective teaching and learning, which must be completed before attending this workshop.

2. This in-person workshop that incorporates personal reflection on teaching practice, design of learning activities, discussion of real teaching scenarios, a chance to discuss and ask questions and access to practical information about organising and carrying out your supervisions.

3. An optional follow-up session for those who wish to explore further after gaining some supervision experience.

Please note that everyone new to supervising undergraduates at Cambridge must complete this course: both the online module and the workshop (or equivalent face-to-face training provided by your Department or Faculty).

Bookings for all workshops will close two days before the workshop to give you time to complete the online module ahead of the workshop.