SeqFeatR statistics

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Number of citations per year for the bioinformatics software tool SeqFeatR
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SeqFeatR specifications

Information


Unique identifier OMICS_12137
Name SeqFeatR
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Sequence
Input format FASTA
Operating system Unix/Linux
License GNU General Public License version 3.0
Computer skills Advanced
Version 0.2.7
Stability Stable
Requirements
qvalue, plyr, Biostrings, ggplot2, scales, plotrix, widgetTools, xtable, coda, tcltk, ape, tcltk2, phangorn, R(≥3.2.2), calibrate, R2jags
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Versioning


No version available

Documentation


Maintainer


  • person_outline Betti Budeus

Information


Unique identifier OMICS_12137
Name SeqFeatR
Interface Web user interface
Restrictions to use None
Input data Sequence alignment
Input format FASTA
License GNU General Public License version 3.0
Computer skills Basic
Version 0.2.0
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Documentation


Maintainer


  • person_outline Betti Budeus

Publication for SeqFeatR

SeqFeatR citation

library_books

Genotypic Prediction of Co receptor Tropism of HIV 1 Subtypes A and C

2016
Sci Rep
PMCID: 4850382
PMID: 27126912
DOI: 10.1038/srep24883

[…] gp120 sequences with tropism information from the Los Alamos HIV Database (74 CCR5 and 11 CXCR4 sequences), calculated a multiple sequence alignment using MUSCLE, and subsequently used the R-package SeqFeatR to discover associations of amino acids with tropism at each alignment position. SeqFeatR constructs 2 × 2 contingency tables with counts of the occurring combinations of tropism and amino ac […]


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SeqFeatR institution(s)
Research Group Bioinformatics, Faculty of Biology, University of Duisburg-Essen, Essen, NRW, Germany; Institute for Virology, University Hospital Düsseldorf, Düsseldorf, NRW, Germany
SeqFeatR funding source(s)
Funding for this work was provided by Deutsche Forschungsgemeinschaft, grant TRR 60 / B1.

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