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GitHub / zxky-sys / meripseqpipe
MeRIP-seq analysis pipeline arranged multiple alignment tools, peakCalling tools, Merge Peaks' methods and methylation analysis methods.
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/zxky-sys%2Fmeripseqpipe
Fork of lazyky/meripseqpipe
Stars: 0
Forks: 0
Open Issues: 0
License: mit
Language:
Repo Size: 56.3 MB
Dependencies:
48
Created: almost 4 years ago
Updated: 11 months ago
Last pushed: almost 4 years ago
Last synced: 11 months ago
Files
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Readme
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Dependencies
.github/workflows/ci.yml
actions
- actions/checkout v2 composite
.github/workflows/linting.yml
actions
- actions/checkout v2 composite
- actions/checkout v1 composite
- actions/setup-node v1 composite
- actions/setup-python v1 composite
environment.yml
conda
- bedtools 2.27.1.*
- bioconductor-deseq2 1.22.1.*
- bioconductor-edger 3.26.0.*
- bioconductor-exomepeak 2.16.0.*
- bowtie2 2.2.5.*
- bwa 0.7.17.*
- deeptools 3.1.3.*
- dos2unix 7.4.1.*
- fastp 0.19.7.*
- fastqc 0.11.8.*
- hisat2 2.1.0.*
- homer 4.9.1.*
- htseq 0.11.2.*
- igvtools 2.3.93.*
- macs2 2.1.2.*
- meme 5.0.2.*
- multiqc 1.7.*
- openjdk 8.0.192.*
- pandoc 2.7.3.*
- perl 5.26.2.*
- picard 2.21.6.*
- python 2.7.15.*
- r-base 3.5.1.*
- r-dplyr 0.8.0.1.*
- r-ggplot2 3.1.1.*
- r-ggrepel 0.8.1.*
- r-ggsci 2.9.*
- r-ggseqlogo 0.1.*
- r-knitr 1.22.*
- r-pheatmap 1.0.12.*
- r-rmarkdown 1.10.*
- r-robustrankaggreg 1.1.*
- rseqc 2.6.4.*
- samtools 1.9.*
- scipy 1.2.1.*
- star 2.6.1b.*
- tophat 2.1.1.*
- ucsc-bigwigtowig 357.*
- ucsc-facount 377.*
- ucsc-fatotwobit 377.*
- ucsc-genepredtobed 377.*
- ucsc-gtftogenepred 357.*
Dockerfile
docker
- nfcore/base 1.9 build