INTRODUCTORY COURSES

Date: date tbc Online course

Time: 2pm

Location: Microsoft Teams

NOTE - This course is now fully booked.
You can still add your name to the waiting list in case of cancellations: Waiting list

Date: date tbc Online course

Time: 2pm

Location: Microsoft Teams

Registration will be available soon

Date: date tbc Online course

Time: 2pm

Location: Microsoft Teams

Registration will be available soon

Date: Monday 1st June Online course

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Tuesday 2nd June Online course

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: date tbc Online course

Time: 2pm

Location: Microsoft Teams

Registration will be available soon

Date: Date to be announced

Time: 2.15pm

Location: Conference Room

Registration will be available soon

The course will introduce you to further useful UNIX commands which you will find helpful when using your CBRG account.

This course is intended for:

  • users that have just completed the Introduction course and want to learn more UNIX
  • those that already have a basic knowledge of UNIX.

The course will be held in the Conference Room in the WIMM and is expected to last 2-3hrs. Each course is limited to 12 participants to allow for individual attention.


The course will cover:

  • Piping
  • Output and input redirection
  • Wild cards and regular expressions
  • Custom tracks
  • Finding, sorting and looking at files
  • Configuring and managing your CBRG account
  • Quotas and disk usage
  • Modules

Date: Date to be announced

Time: 2.15pm

Location: Conference Room

Registration will be available soon

This is part I of a two-part course, with an Introduction followed by a more advanced session usually one week later.

This course is intended for users who are starting to analyse ChIP-Seq data. It will be held in the Conference Room in the WIMM and is expected to last 2-3hrs. Each course is limited to 12 participants to allow for individual attention.

The course will cover:

  • Downloading sequencing files from WTCHG
  • HTS data formats - fastq, SAM, BAM, BigWigs
  • Mapping HTS data using Bowtie
  • Creating and uploading BigWig file to UCSC Genome Browser
  • A look at SAMtools
  • Viewing BAM files at UCSC Genome Browser

The course is not intended to be a comprehensive guide to ChIp-Seq data analysis at the CBRG. Instead it is designed to show you the first steps - looking at your data or looking at data downloaded from GEO (a seperate tutorial on this is coming soon)

Date: Date to be announced

Time: 2.15pm

Location: Conference Room

Registration will be available soon

This is part II of a two-part course, with an Introduction followed by a more advanced session usually one week later.

This course is intended to show how to peak call and view the results. It will be held in the Conference Room in the WIMM and is expected to last 2-3hrs. Each course is limited to 12 participants to allow for individual attention.

The course will cover:

  • Peak calling using MACS2
  • Annotating output files
  • Using MIG - Multi Image Genome Viewer to view the results.

Date: Date to be announced

Time: 2.15pm

Location: Conference Room

Registration will be available soon

This is part I of a two-part course, with an Introduction followed by a more advanced session usually one week later.

This course is intended for users who are starting to analyse ChIP-Seq data. It will be held in the Conference Room in the WIMM and is expected to last 2-3hrs. Each course is limited to 12 participants to allow for individual attention.

The course will cover:

  • Downloading sequencing files from WTCHG
  • HTS data formats - fastq, SAM, BAM, BigWigs
  • Mapping HTS data using Bowtie
  • Creating and uploading BigWig file to UCSC Genome Browser
  • A look at SAMtools
  • Viewing BAM files at UCSC Genome Browser

The course is not intended to be a comprehensive guide to ChIp-Seq data analysis at the CBRG. Instead it is designed to show you the first steps - looking at your data or looking at data downloaded from GEO (a seperate tutorial on this is coming soon)

Date: Date to be announced

Time: 2.15pm

Location: Conference Room

Registration will be available soon

This is part II of a two-part course, with an Introduction followed by a more advanced session usually one week later.

This course is intended to show how to peak call and view the results. It will be held in the Conference Room in the WIMM and is expected to last 2-3hrs. Each course is limited to 12 participants to allow for individual attention.

The course will cover:

  • Peak calling using MACS2
  • Annotating output files
  • Using MIG - Multi Image Genome Viewer to view the results.

Date: Monday 8th June 2020

Time: 2pm

Location: Microsoft Teams

NOTE - This course is now fully booked.
You can still add your name to the waiting list in case of cancellations: Waiting list

Date: Tuesday 9th June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Thursday 11th June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Tuesday 16th June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Thursday 18th June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Monday 22nd June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Tuesday 23rd June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Thursday 25th June 2020

Time: 2pm

Location: Microsoft Teams

Course Registration

Date: Date to be announced

Time: Conference Room

Location: 2.15pm

Registration will be available soon

This course will be presented by Dominic Waithe, UKRI Fellow at the MRC WIMM Centre of Computational Biology, WIMM

Details for this course will be added at a later date.

Date: Date to be announced

Time: 2:00pm - 4:00pm

Location: Nuffield Room

Registration will be available soon

This course will be presented by Dominic Waithe, UKRI Fellow at the MRC WIMM Centre of Computational Biology, WIMM

This course will be a small intensive workshop designed to give researchers an introduction to the software packages Imaris and Huygens. Imaris is microscopy image analysis software used for dealing with 3-D, time-series and also very large datasets. Huygens is used for deconvolving datasets on the CBB servers. The workshop will be a 2h presentation led by Dominic. Topics will include basic introductions to the software and worked examples for segmentation, colocalisation, tracking and deconvolution.


SOFTWARE CARPENTRY

Date: Dates to be announced

Time: 1pm-5pm

Location: Conference Room

Registration will be available soon

Basic Computational Skills for Researchers:
Using the Command Line, Plotting in Python, and Version Control


Software Carpentry aims to help researchers get their work done in less time and with less pain by teaching them basic research computing skills. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.

This course will be presented by Nicki Gray (WIMM, CCB), and Robert Beagrie (WIMM, Molecular Haematology Unit).

Full details: Syllabus and Schedule