Published April 7, 2021
| Version v0.2.0
Software
Open
PEAKachu: a peak calling tool for CLIP/RIP-seq data
- 1. University of Wuerzburg
- 2. ZB MED
Description
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.
Notes
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
Files
tbischler/PEAKachu-v0.2.0.zip
Files
(4.1 MB)
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md5:e31d9d9998455ecea3277f02e9346212
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Additional details
Related works
- Is supplement to
- https://github.com/tbischler/PEAKachu/tree/v0.2.0 (URL)