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FastEPRR specifications

Information


Unique identifier OMICS_25113
Name FastEPRR
Alternative name Fast Estimation of Population Recombination Rates
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format FASTA,CLUSTAL,phylip
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Hai-Peng Li <>

Publication for Fast Estimation of Population Recombination Rates

FastEPRR in publications

 (2)
PMCID: 5759280
PMID: 29321812
DOI: 10.1186/s13068-017-1004-9

[…] on nonlinear regression model considering the r2 value = 1 at marker genetic distance of 0 cm to determine the trend of ld decay in jatropha genomes. recombination rate analysis was evaluated using fasteprr with the nonoverlapped sliding window length of 5 cm []., qtl calculations were completed using the software mapqtl5 []. rmqm (restricted mqm mapping) was used to map qtls and estimate […]

PMCID: 5850741
PMID: 28482038
DOI: 10.1093/molbev/msx157

[…] species. using 600 thousand years as the divergence time of the two rat species and a recombination rate of 0.0837 cm/mb, the lower bound of recombination rate in these admixed regions estimated by fasteprr (, online), we expected that the length of a shared ancestral sequence was about 1,991 bp, and the probability to retain a 40,000 bp fragment was 3.97 × 10−8. thus, the admixed regions […]


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FastEPRR institution(s)
CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China; University of Chinese Academy of Sciences, Beijing, China
FastEPRR funding source(s)
Supported by the Strategic Priority Research Program of the Chinese Academy of Sciences (XDB13040800), the National Natural Science Foundation of China (no. 91531306), and the 973 project (no. 2012CB316505).

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