BSD Ports

wip/subread 2.1.0 NetBSD

High-performance read alignment, quantification and mutation discovery

System
NetBSD
Repository
pkgsrc-wip
Maintainer
[email protected]
License
gnu-gpl-v3
Categories
wip, biology

Description

The Subread package comprises a suite of software programs for processing next-gen sequencing read data including:

Subread: a general-purpose read aligner which can align both
genomic DNA-seq and RNA-seq reads. It can also be used to
discover genomic mutations including short indels and structural
variants.

Subjunc: a read aligner developed for aligning RNA-seq reads
and for the detection of exon-exon junctions. Gene fusion events
can be detected as well.

featureCounts: a software program developed for counting
reads to genomic features such as genes, exons, promoters and
genomic bins.

Sublong: a long-read aligner that is designed based on
seed-and-vote.

exactSNP: a SNP caller that discovers SNPs by testing signals
against local background noises.

In the other systems

SystemPortVersion
NetBSDwip/subread2.1.0
FreeBSDbiology/subread2.1.1
DragonFlybiology/subread2.1.0
HardenedBSDbiology/subread2.1.1
GhostBSDbiology/subread2.1.1

Install

From pkgsrc-wip (no binary package):

cd /usr/pkgsrc/wip/subread && make install clean

Dependencies

Run dependencies 2
Required by 1