Summarized existing analysis methods for RIP-seq, including alignment, peak calling, and annotation.
- fastqc
- create index & sequence
- duplicated & make index
- peak calling
- annotation
https://github.com/Xinglab/CLAM
conda activate python2.7
pip install --index-url https://test.pypi.org/simple/ --no-deps CLAM
https://github.com/smithlabcode/piranha
conda activate python2.7
conda install -c bioconda piranha
https://bioconductor.riken.jp/packages/3.4/bioc/html/RIPSeeker.html