pal_finder

downloads

Find microsatellite repeat elements from sequencing reads and design PCR primers to amplify them

Home http://sourceforge.net/projects/palfinder/
Versions 0.02.04
License GPLv3
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/pal_finder

Finds microsatellite repeat elements directly from raw 454 or Illumina paired-end sequencing reads, and designs PCR primers to amplify these repeat loci in an automated fashion. Exact matches to repeats or 2-, 3-, 4-, 5-, and/or 6-mers are located and primer3 is then used to generate primer pairs to amplify regions containing microsatellite loci.

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install pal_finder

and update with:

conda update pal_finder

docker

A Docker container is available at https://quay.io/repository/biocontainers/pal_finder.