diff options
-rw-r--r-- | biology/peak-classifier/DESCR | 5 | ||||
-rw-r--r-- | biology/peak-classifier/Makefile | 22 | ||||
-rw-r--r-- | biology/peak-classifier/PLIST | 10 | ||||
-rw-r--r-- | biology/peak-classifier/distinfo | 6 |
4 files changed, 43 insertions, 0 deletions
diff --git a/biology/peak-classifier/DESCR b/biology/peak-classifier/DESCR new file mode 100644 index 00000000000..875a28de0c9 --- /dev/null +++ b/biology/peak-classifier/DESCR @@ -0,0 +1,5 @@ +Classify ChIP/ATAC-Seq peaks based on features provided in a GFF +Peaks are provided in a BED file sorted by chromosome and position. The GFF +must be sorted by chromosome and position, with gene-level features separated +by ### tags and each gene organized into subfeatures such as transcripts and +exons. This is the default for common data sources. diff --git a/biology/peak-classifier/Makefile b/biology/peak-classifier/Makefile new file mode 100644 index 00000000000..fd4e0b50820 --- /dev/null +++ b/biology/peak-classifier/Makefile @@ -0,0 +1,22 @@ +# $NetBSD: Makefile,v 1.1 2021/06/15 13:54:14 bacon Exp $ + +DISTNAME= peak-classifier-0.1.1 +CATEGORIES= biology +MASTER_SITES= ${MASTER_SITE_GITHUB:=auerlab/} + +MAINTAINER= bacon@NetBSD.org +HOMEPAGE= https://github.com/auerlab/peak-classifier +COMMENT= Classify ChIP/ATAC-Seq peaks based on features provided in a GFF +LICENSE= 2-clause-bsd + +DEPENDS+= bedtools>=0:../../biology/bedtools + +REPLACE_PYTHON= feature-view.py + +pre-build: + cd ${WRKSRC} && make depend PREFIX=${PREFIX} + +.include "../../biology/biolibc/buildlink3.mk" +.include "../../devel/libxtend/buildlink3.mk" +.include "../../lang/python/application.mk" +.include "../../mk/bsd.pkg.mk" diff --git a/biology/peak-classifier/PLIST b/biology/peak-classifier/PLIST new file mode 100644 index 00000000000..01d424339fe --- /dev/null +++ b/biology/peak-classifier/PLIST @@ -0,0 +1,10 @@ +@comment $NetBSD: PLIST,v 1.1 2021/06/15 13:54:14 bacon Exp $ +bin/extract-genes +bin/feature-view +bin/filter-overlaps +bin/peak-classifier +libexec/extract-genes.awk +man/man1/extract-genes.1 +man/man1/feature-view.1 +man/man1/filter-overlaps.1 +man/man1/peak-classifier.1 diff --git a/biology/peak-classifier/distinfo b/biology/peak-classifier/distinfo new file mode 100644 index 00000000000..071885bea4a --- /dev/null +++ b/biology/peak-classifier/distinfo @@ -0,0 +1,6 @@ +$NetBSD: distinfo,v 1.1 2021/06/15 13:54:14 bacon Exp $ + +SHA1 (peak-classifier-0.1.1.tar.gz) = b5716fe3575cb9631682c8cdb4d09fd84d34ab12 +RMD160 (peak-classifier-0.1.1.tar.gz) = 2a5a8ee1c1c0a3db034395c9d71b3a7353f1a09a +SHA512 (peak-classifier-0.1.1.tar.gz) = 5a3a5acbc815b47cfa4ba5c15eaf57be4a82b68197f031a311e41a46e33c394355687b0c709826cc214f1b36e168036b798f287c6f0391cdc39ef638d2617741 +Size (peak-classifier-0.1.1.tar.gz) = 86012 bytes |