hbctraining/In-depth-NGS-Data-Analysis-Course

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hbctraining/In-depth-NGS-Data-Analysis-Course

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In-depth NGS Data Analysis Course (deprecated)

This repository of training materials is deprecated, please go to https://hbctraining.github.io/main/ for links to our up-to-date training materials on NGS Data Analysis topics.

scRNA-seq

scRNA-seq_online

DGE_workshop

Training-modules

Materials for short, half-day workshops

Jupyter Notebook

Intro-to-ChIPseq

Intro to ChIPseq using HPC

Intro-to-rnaseq-hpc-O2

This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster

DGE_workshop_salmon_online

Intro-to-R

Intro-to-rnaseq-hpc-salmon-flipped

Introduction to bulk RNA-seq

Intro-to-R-flipped

DGE_workshop_salmon

Intro-to-ChIPseq-flipped

Intro-to-R-with-DGE

main

Intro-to-rnaseq-hpc-salmon

Intro-to-shell-flipped

Accessing_public_genomic_data

Tutorials on accessing public reference and genomic data

variant_analysis

publication_perfect

Six hour hands-on to creating publication-quality plots in R

bioinformatics_online

Resource list and preparation instructions for online learning and teaching for Bioinformatics

Intro-to-Shell

Introduction to the Unix shell

rnaseq_overview

Short course describing the considerations for a successful RNA-seq experiment

rnaseq-cb321

Intro-to-Unix-archived

Materials for a 2-day introduction to the bash language, the Linux OS, and high-performance computing.

Intro-to-rnaseq-hpc-gt

Introduction to RNA-seq using HPC

Intro-to-rnaseq-hpc-orchestra

This repository has teaching materials for a 2-day Introduction to RNA-sequencing data analysis workshop using the Orchestra Cluster.

versioning_data_scripts

GitKraken lesson (forked from HBS-RCS)

Peak_analysis_workshop

An introduction to various methods/approaches for the analysis of peaks generated from ChIP-seq / CUT&RUN / ATAC-seq

reproducibility-tools

Intro-to-rnaseq-fasrc-salmon-flipped

GCC-BOSC-2018

Lessons for "Setting up for Success when planning an RNA-seq experiment" session at GCC-BOSC 2018

Intro-to-shell-fasrc-flipped

Shell training materials for the FAS-RC cluster

RNA-seq-CB321qc_2022

Teaching RNA-seq experimental design and analysis + data storage and sharing for genomics data

Rmarkdown_analysis_reports

Intro-to-R-online-Catalyst

Contains materials for an online version of the Introduction to R

EpiR

Introduction to R for Epi summer program

datafest2021_Rmarkdown

version-control-gitkraken

Galaxy_RNA-Seq