biology/peak-classifier: import peak-classifier-0.1.1

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.

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