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| author | Jason W. Bacon <jwb@FreeBSD.org> | 2022-12-12 17:29:36 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2022-12-12 17:30:00 +0000 |
| commit | 8e926be18e0ab02a6d7ac35958a2eb6f0bee5a22 (patch) | |
| tree | c81c4fce6663a6bfaa84089d11331af9b1a996e5 | |
| parent | a94af519b5862e3350ce7ba79098fb0772bdd1ba (diff) | |
| download | ports-8e926be18e0ab02a6d7ac35958a2eb6f0bee5a22.tar.gz ports-8e926be18e0ab02a6d7ac35958a2eb6f0bee5a22.zip | |
biology/rna-seq: Metaport for RNA-Seq analysis
Metaport to install tools for typical RNA-Seq analysis, including QC,
adapter trimming, alignment, and differential analysis.
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/rna-seq/Makefile | 26 | ||||
| -rw-r--r-- | biology/rna-seq/distinfo | 1 | ||||
| -rw-r--r-- | biology/rna-seq/pkg-descr | 2 |
4 files changed, 30 insertions, 0 deletions
diff --git a/biology/Makefile b/biology/Makefile index b544cbf16e59..b466435210cf 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -190,6 +190,7 @@ SUBDIR += rampler SUBDIR += readseq SUBDIR += recombine + SUBDIR += rna-seq SUBDIR += ruby-bio SUBDIR += rubygem-bio SUBDIR += rubygem-bio-executables diff --git a/biology/rna-seq/Makefile b/biology/rna-seq/Makefile new file mode 100644 index 000000000000..bdba35652327 --- /dev/null +++ b/biology/rna-seq/Makefile @@ -0,0 +1,26 @@ +PORTNAME= rna-seq +DISTVERSION= 0.1.0 +CATEGORIES= biology python +MASTER_SITES= # empty + +MAINTAINER= jwb@FreeBSD.org +COMMENT= Metaport for RNA-Seq analysis +WWW= https://example.com/rna-seq + +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 \ + gffread>0:biology/gffread \ + kallisto>0:biology/kallisto \ + hisat2>0:biology/hisat2 \ + samtools>0:biology/samtools \ + igv>0:biology/igv \ + fasda>0:biology/fasda + +USES= metaport python + +.include <bsd.port.mk> diff --git a/biology/rna-seq/distinfo b/biology/rna-seq/distinfo new file mode 100644 index 000000000000..46e828c40768 --- /dev/null +++ b/biology/rna-seq/distinfo @@ -0,0 +1 @@ +TIMESTAMP = 1665354692 diff --git a/biology/rna-seq/pkg-descr b/biology/rna-seq/pkg-descr new file mode 100644 index 000000000000..f6986df491fc --- /dev/null +++ b/biology/rna-seq/pkg-descr @@ -0,0 +1,2 @@ +Metaport to install tools for typical RNA-Seq analysis, including QC, +adapter trimming, alignment, and differential analysis. |