BSD Ports

biology/peak-classifier 0.1.4.13_2 FreeBSD

Classify ChIP/ATAC-Seq peaks based on features provided in a GFF

System
FreeBSD
Repository
FreeBSD ports
Maintainer
[email protected]
License
BSD2CLAUSE
Categories
biology
Package size
15.2 KiB, 31.1 KiB installed

Description

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.

In the other systems

SystemPortVersion
FreeBSDbiology/peak-classifier0.1.4.13_2
NetBSDbiology/peak-classifier0.1.4.21
DragonFlybiology/peak-classifier0.1.4.13_1
HardenedBSDbiology/peak-classifier0.1.4.13_2
GhostBSDbiology/peak-classifier0.1.4.13_2

Install

Binary package:

pkg install peak-classifier

From the ports tree:

cd /usr/ports/biology/peak-classifier/ && make install clean

To depend on this port in another port's Makefile:

RUN_DEPENDS=	peak-classifier>0:biology/peak-classifier

Packages

The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.

Repositoryaarch64amd64armv6armv7i386
FreeBSD:14:latest0.1.4.13_20.1.4.13_2-0.1.4.13_10.1.4.13_2
FreeBSD:14:quarterly0.1.4.13_20.1.4.13_2n/a0.1.4.13_10.1.4.13_2
FreeBSD:15:latest0.1.4.13_20.1.4.13_2n/a0.1.4.13_10.1.4.13_1
FreeBSD:15:quarterly0.1.4.13_20.1.4.13_2n/an/an/a
FreeBSD:16:latest0.1.4.13_20.1.4.13_2n/an/an/a
FreeBSD:16:quarterlyn/an/an/an/an/a

Dependencies

As this port's Makefile names them.

Library 2

Runtime 2

The full lists below include those, and their dependencies in turn.

Build dependencies 9
Run dependencies 82

Configuration

No options to configure.

USES
localbase python shebangfix
Service scripts
none

Files

Manual pages 4
  • extract-genes(1)
  • feature-view(1)
  • filter-overlaps(1)
  • peak-classifier(1)
pkg-plist 9
  • bin/extract-genes
  • bin/feature-view
  • bin/filter-overlaps
  • bin/peak-classifier
  • libexec/extract-genes.awk
  • share/man/man1/extract-genes.1.gz
  • share/man/man1/feature-view.1.gz
  • share/man/man1/filter-overlaps.1.gz
  • share/man/man1/peak-classifier.1.gz
distinfo 1
FileSizeSHA256
auerlab-peak-classifier-0.1.4-13-gfb89af3_GH0.tar.gz8742983fd1032eb3ab8b92ffbbf9f06da1b18cf93a39bc01aba249961550e548c0df1

Commit history 0

No commits in the history this site was built from.