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biology/chip-seq: Metaport for ChIP-Seq analysis

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Metaport to install tools for typical ChIP-Seq analysis, including QC,
adapter trimming, alignment, and differential analysis.

Presently identical to biology/atac-seq, but may diverge in the future.
This commit is contained in:
Jason W. Bacon 2023-06-14 16:22:35 -05:00
parent f9b727504f
commit fddb1ea643
4 changed files with 31 additions and 0 deletions
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1
biology/Makefile
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@ -32,6 +32,7 @@
SUBDIR += cd-hit
SUBDIR += cdbfasta
SUBDIR += checkm
SUBDIR += chip-seq
SUBDIR += clustal-omega
SUBDIR += clustalw
SUBDIR += cufflinks

27
biology/chip-seq/Makefile Normal file
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@ -0,0 +1,27 @@
PORTNAME= chip-seq
DISTVERSION= 0.1.2
CATEGORIES= biology python
MASTER_SITES= # empty
MAINTAINER= jwb@FreeBSD.org
COMMENT= Metaport for ChIP-Seq analysis
WWW= https://github.com/auerlab/
LICENSE= BSD2CLAUSE
RUN_DEPENDS= sra-tools>0:biology/sra-tools \
fastq-trim>0:biology/fastq-trim \
fastqc>0:biology/fastqc \
${PYTHON_PKGNAMEPREFIX}multiqc>0:biology/py-multiqc@${PY_FLAVOR} \
biolibc-tools>0:biology/biolibc-tools \
bwa>0:biology/bwa \
bowtie2>0:biology/bowtie2 \
samtools>0:biology/samtools \
${PYTHON_PKGNAMEPREFIX}macs2>0:biology/py-macs2@${PY_FLAVOR} \
fasda>0:biology/fasda \
peak-classifier>0:biology/peak-classifier \
webbrowser>0:www/webbrowser
USES= metaport python
.include <bsd.port.mk>

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biology/chip-seq/distinfo Normal file
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@ -0,0 +1 @@
TIMESTAMP = 1686777697

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biology/chip-seq/pkg-descr Normal file
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Metaport to install tools for typical ChIP-Seq analysis, including QC,
adapter trimming, alignment, and differential analysis.