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GitHub / epigen-UCSD / atac_seq_pipeline
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/epigen-UCSD%2Fatac_seq_pipeline
Stars: 5
Forks: 0
Open Issues: 10
License: bsd-3-clause
Language: Python
Repo Size: 464 KB
Dependencies:
54
Created: over 6 years ago
Updated: 10 months ago
Last pushed: over 3 years ago
Last synced: 10 months ago
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Dependencies
- Allpackagesneeded *
- Other *
- Python *
requirements.txt
pypi
- bedtools ==2.28.0
- bioconductor-rsamtools *
- boost ==1.60.0
- bowtie ==1.1.2
- bowtie2 ==2.2.8
- cutadapt ==1.16
- ghostscript *
- gnuplot *
- graphviz ==2.38.0
- gsl *
- htslib ==1.9
- jinja2 *
- libgfortran ==3.0
- libtool *
- macs2 =2.1.1.20160309
- matplotlib *
- metaseq *
- ncurses *
- numpy ==1.10.2
- pandas ==0.18.0
- picard ==2.18.2
- pigz *
- preseq ==2.0.3
- pybedtools ==0.7.10
- pyfaidx ==0.5.3
- pysam *
- python-levenshtein *
- r-bitops *
- r-catools *
- r-snow *
- r-snowfall *
- r-spp ==1.13
- sambamba ==0.6.6
- samtools ==1.9
- scipy *
- seqtk ==1.2
- trim-galore ==0.4.1
- ucsc-bedclip *
- ucsc-bedgraphtobigwig *
- ucsc-bedtobigbed *
- ucsc-bigWigAverageOverBed *
- ucsc-bigwiginfo *
- ucsc-fetchchromsizes *
- ucsc-twobittofa *
- ucsc-wigtobigwig *
- zlib *