RNA seq Analysis Workflow | From fastq to read counts using featurecounts
RNA Seq FeatureCounts Tutorial
Download the bash script here: / rna-seq-tutorial-107475693
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Materials
_________________________________________________________________________________
Original tutorial: https://training.galaxyproject.org/tr...
Install Tools
Anaconda
Linux • Install , Configure and Run Anaconda ...
MacOS
• Install, Configure and Run Anaconda i... - GUI Installer
• Install, Configure and Run Anaconda i... - Command line installer
STAR
anaconda: • STAR RNA Seq Download and Install | A...
binaries: • STAR RNA Seq Download and Install | B...
compile from source: • STAR RNA Seq Download and Install | C...
fastqc
binaries: • Fastqc Linux Install and Usage (Comma...
conda: • fastqc linux install and usage (conda...
featureCounts
binaries: • RNA Seq Tools | How to Install and Ru...
conda: • RNA Seq | FeatureCounts Linux Instal...
RNA seq analysis playlist • Playlist
STAR Documentation
github: https://github.com/alexdobin/STAR
manual: https://github.com/alexdobin/STAR/blo...
Chapters
00:03 Intro
00:11 Outline of this tutorial
01:32 PC Requirement
03:49 Download Example Data
18:56 Install tools using anaconda
21:15 Activate the environment
22:21 Generate Index
27:32 Mapping
42:50 FeatureCount
49:22 Aggreate feature count report
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RNA seq read counts using featurecounts
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