CVS commit: pkgsrc/biology/rna-seq

["Jason Bacon" <bacon%netbsd.org@localhost>]

Module Name:    pkgsrc
Committed By:   bacon
Date:           Mon Dec 12 18:39:36 UTC 2022

Added Files:
        pkgsrc/biology/rna-seq: DESCR Makefile

Log Message:
biology/rna-seq: Core tools needed for RNA-Seq analysis

The rna-seq meta-package provides the core tools needed for performing
a typical RNA-Seq differential gene expression analysis, including
adapter trimming, quality control, alignment, and identification of
differentially expressed genes.  Researchers may want additional tools
for data manipulation, gene ontology, etc.


To generate a diff of this commit:
cvs rdiff -u -r0 -r1.1 pkgsrc/biology/rna-seq/DESCR \
    pkgsrc/biology/rna-seq/Makefile

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

Added files:

Index: pkgsrc/biology/rna-seq/DESCR
diff -u /dev/null pkgsrc/biology/rna-seq/DESCR:1.1
--- /dev/null   Mon Dec 12 18:39:36 2022
+++ pkgsrc/biology/rna-seq/DESCR        Mon Dec 12 18:39:36 2022
@@ -0,0 +1,5 @@
+The rna-seq meta-package provides the core tools needed for performing
+a typical RNA-Seq differential gene expression analysis, including
+adapter trimming, quality control, alignment, and identification of
+differentially expressed genes.  Researchers may want additional tools
+for data manipulation, gene ontology, etc.
Index: pkgsrc/biology/rna-seq/Makefile
diff -u /dev/null pkgsrc/biology/rna-seq/Makefile:1.1
--- /dev/null   Mon Dec 12 18:39:36 2022
+++ pkgsrc/biology/rna-seq/Makefile     Mon Dec 12 18:39:36 2022
@@ -0,0 +1,23 @@
+# $NetBSD: Makefile,v 1.1 2022/12/12 18:39:36 bacon Exp $
+#
+
+DISTNAME=      rna-seq-1.0
+CATEGORIES=    biology meta-pkgs
+MASTER_SITES=  # empty
+
+MAINTAINER=    bacon%NetBSD.org@localhost
+COMMENT=       Core tools needed for RNA-Seq analysis
+
+DEPENDS+=      fastq-trim>=0:../../biology/fastq-trim
+DEPENDS+=      fastqc>=0:../../biology/fastqc
+DEPENDS+=      biolibc-tools>=0:../../biology/biolibc-tools
+DEPENDS+=      gffread>=0:../../biology/gffread
+DEPENDS+=      kallisto>=0:../../biology/kallisto
+DEPENDS+=      hisat2>=0:../../biology/hisat2
+DEPENDS+=      samtools>=0:../../biology/samtools
+DEPENDS+=      igv>=0:../../biology/igv
+DEPENDS+=      fasda>=0:../../biology/fasda
+
+META_PACKAGE=  yes
+
+.include "../../mk/bsd.pkg.mk"