AftrRAD specifications

Information


Unique identifier OMICS_08904
Name AftrRAD
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl, R
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Documentation


Maintainer


Publication for AftrRAD

AftrRAD citations

 (2)
library_books

Hybrid origin of European Vipers (Vipera magnifica and Vipera orlovi) from the Caucasus determined using genomic scale DNA markers

2016
BMC Evol Biol
PMCID: 4828770
PMID: 27068498
DOI: 10.1186/s12862-016-0647-7

[…] ed to pool individuals in equimolar concentrations for sequencing. Pooled libraries were run in single read 50-bp runs on an Illumina sequencer. SNP identification and genotyping were performed using AftrRAD version 3.3 [] with the following parameters: Phred quality scores had to exceed 20 to retain the base call, minimum average read depth was 20 per allele, reads were considered allelic if they […]

library_books

Genetic diversity in migratory bats: Results from RADseq data for three tree bat species at an Ohio windfarm

2016
PeerJ
PMCID: 4730867
PMID: 26824001
DOI: 10.7717/peerj.1647

[…] provide any strong evidence for genetic structure within each species (see below), we generated single population folded site frequency spectra for each of the datasets using scripts associated with AftrRAD, and used these to assess historical demographic patterns and estimate associated parameters in the three species. Each single-population site frequency spectrum was generated using a maximum […]

AftrRAD institution(s)
Department of Evolution, Ecology, and Organismal Biology, Aronoff Laboratory, The Ohio State University, Columbus, OH, USA; Ohio Biodiversity Conservation Partnership, Aronoff Laboratory, The Ohio State University, Columbus, OH, USA

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