Bioinformatics: Featurecount Install and more

Subhead-2.0.2

https://github.com/ShiLab-Bioinformatics/subread/releases

1. wget https://github.com/ShiLab-Bioinformatics/subread/releases/download/2.0.2/subread-2.0.2-macOS-x86_64.tar.gz
2. tar -xvf subread-2.0.2-macOS-x86_64.tar.gz
3. mv -v subread-2.0.2-macOS-x86_64 apps/
4. nano .zshrc
5. add: Export PATH=$PATH:/Users/__/___/subread/bin
6. get gif or make gif: https://useast.ensembl.org/Mus_musculus/Info/Index
7. use eg) featureCounts -T 5 -a annotation-subread/mouse_ensembl/Mus_musculus.GRCm38.102.gtf  -o quants/KO_count_matrix.txt HISAT2/SRR2936859.bam HISAT2/SRR2936860.bam HISAT2/SRR2936861.bam HISAT2/SRR2936864.bam HISAT2/SRR2936865.bam
8. Cat file | less
9. Cat file | cut f1,7-10> new file (could rename of column in excel!!!)

reference:

https://rdrr.io/bioc/Rsubread/man/buildindex.html

https://github.com/ShiLab-Bioinformatics/subread/releases