Hotspot: software to support sperm-typing for investigating recombination hotspots.
Ontology highlight
ABSTRACT: Motivation
In many organisms, including humans, recombination clusters within recombination hotspots. The standard method for de novo detection of recombinants at hotspots is sperm typing. This relies on allele-specific PCR at single nucleotide polymorphisms. Designing allele-specific primers by hand is time-consuming. We have therefore written a package to support hotspot detection and analysis.Results
hotspot consists of four programs: asp looks up SNPs and designs allele-specific primers; aso constructs allele-specific oligos for mapping recombinants; xov implements a maximum-likelihood method for estimating the crossover rate; six, finally, simulates typing data.Availability and implementation
hotspot is written in C. Sources are freely available under the GNU General Public License from http://github.com/evolbioinf/hotspot/Contact
haubold@evolbio.mpg.deSupplementary information
Supplementary data are available at Bioinformatics online.
SUBMITTER: Odenthal-Hesse L
PROVIDER: S-EPMC4978934 | biostudies-literature |
REPOSITORIES: biostudies-literature
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