Bischler, Thorsten
Förstner, Konrad U.
Maticzka, Daniel
Wright, Patrick R.
2021-04-07
<p>PEAKachu is a peak calling tool for CLIP/RIP-seq data that can be used to identify targets and interaction sites of RNA-binding proteins. The tool is written in Python 3 and depends on several software packages for Python and R.</p>
The following dependency package versions have been used for PEAKachu v.0.2.0:
Python: Cython 0.29.13, numpy 1.18.5, scipy 1.3.1, matplotlib 3.3.1, pandas 0.25.1, biopython 1.77, pysam 0.16.0.1, bcbio-gff 0.6.6, statsmodels 0.10.1, numexpr 2.7.0, rpy2 3.1.0
R: edgeR 3.26.5, DESeq2 1.24.0
https://doi.org/10.5281/zenodo.4669966
oai:zenodo.org:4669966
Zenodo
https://github.com/tbischler/PEAKachu/tree/v0.2.0
https://doi.org/10.5281/zenodo.4669965
info:eu-repo/semantics/openAccess
ISC License
https://www.isc.org/downloads/software-support-policy/isc-license/
Peak calling
CLIP-seq
RIP-seq
PEAKachu: a peak calling tool for CLIP/RIP-seq data
info:eu-repo/semantics/other