General Information
Description:
This 3-day hands-on workshop will instruct participants on how to efficiently manage and analyze ChIP-seq data using the command line interface and work in a high-performance computing (HPC) environment.
The workshop will begin with an introduction to the UNIX shell and basic commands, followed by an introduction to high-performance computing, specifically focused on HMS-RC's O2 cluster. Starting on the second day, the workshop will delve into the ChIP-seq workflow starting from sequence reads, including experimental design guidance for the chromatin immunoprecipitation step. Participants can expect to learn how to run a ChIP-seq data analysis workflow, including quality control, peak calling, visualization, and functional analysis steps.
No prior programming experience or command line knowledge is required.
...
Setup
1. Please have the following programs installed on your laptop:
Mac users
1. Java
2. Filezilla (make sure you get the Filezilla Client, not the Server)
...
- Once the account gets created, you will get an email from HMS Research Computing with a confirmation.
...
Schedule
For this workshop schedule and materials please see the GitHub page.
Practice Exercises
Acknowledgements, Support & License:
This workshop is sponsored by the Harvard Medical School Tools and Technology Committee (TnT), the Harvard NeuroDiscovery Center (HNDC), and the Harvard Stem Cell Institute (HSCI).
These lessons have been developed by members of the teaching team at the Harvard Chan Bioinformatics Core (HBC). These are open access materials distributed under the terms of the Creative Commons Attribution license (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
...