BioBin protocols

BioBin specifications

Information


Unique identifier OMICS_14120
Name BioBin
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A configuration file, LOKI database, a list of all individuals, phenotype file, region file, role file, weight file
Input format TXT, VCF
Output data Bins report, locus report
Operating system Unix/Linux, Mac OS
Programming languages C++
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 2.2.1
Stability Stable
Requirements Boost, SQLite, Python, suds, apsw, liftOver binaries
Maintained Yes

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Documentation


Publication for BioBin

BioBin IN pipeline

2009
PMCID: 2795765
PMID: 19954539
DOI: 10.1186/1471-2180-9-248

[…] generated by the bioedit sequence alignment editor (version 7.0.1) [35]. nucleotide sequences were translated using translate nucleic acid sequences software [36]http://biotools.umassmed.edu/cgi-bin/biobin/transeq. neighbor-joining phylogenetic tree topologies of nucleotide and predicted amino acid alignments were constructed using the mega (molecular evolutionary genetics analysis) 3.1 software […]

BioBin institution(s)
Duke University Medical Center, Duke General Surgery, Durham, NC, USA; Department of Biochemistry and Molecular Biology, Center for Systems Genomics, The Pennsylvania State University, PA, USA; Biomedical and Translational Informatics, Geisinger Health System, Danville, PA, USA
BioBin funding source(s)
This work was supported by NIH (grants LM010040, HL065962) and the Pennsylvania Department of Health Tobacco CURE Funds.

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