BSD Ports

wip/pooler 1.75 NetBSD

Optimise DNA sequencing primer-set combinations

System
NetBSD
Repository
pkgsrc-wip
Maintainer
[email protected]
License
apache-2.0
Categories
wip, biology

Description

Optimise combinations of primers and minimise the formation of dimers in multiplexed PCR. Primer Pooler can: * Check through each proposed pool for combinations that are likely to form dimers * Automatically move prospective amplicons between proposed pools to reduce dimer formation * Automatically search the genome sequence to find which amplicons overlap, and place their corresponding primers in separate pools * Optionally keep pool sizes within a specified range * Handle thousands of primers without being slow (useful for high-throughput sequencing applications) * Do all of the above with degenerate primers too.

In the other systems

SystemPortVersion
NetBSDwip/pooler1.75
FreeBSDbiology/pooler1.89
DragonFlybiology/pooler1.89
HardenedBSDbiology/pooler1.89
GhostBSDbiology/pooler1.89

Install

From pkgsrc-wip (no binary package):

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

Dependencies

No port depends on this one.