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
| System | Port | Version |
|---|---|---|
| NetBSD | wip/subread | 2.1.0 |
| FreeBSD | biology/subread | 2.1.1 |
| DragonFly | biology/subread | 2.1.0 |
| HardenedBSD | biology/subread | 2.1.1 |
| GhostBSD | biology/subread | 2.1.1 |
Install
From pkgsrc-wip (no binary package):
cd /usr/pkgsrc/wip/subread && make install clean