Protocols

BpWrapper specifications

Information


Unique identifier OMICS_27437
Name BpWrapper
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License Artistic License version 2.0, GNU General Public License version 2.0
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes

Download


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Versioning


No version available

Maintainer


  • person_outline Wei-Gang Qiu

Additional information


https://metacpan.org/pod/Bio::BPWrapper

Publication for BpWrapper

BpWrapper citation

call_split

Primordial origin and diversification of plasmids in Lyme disease agent bacteria

2018
BMC Genomics
PMCID: 5870499
PMID: 29580205
DOI: 10.1186/s12864-018-4597-x
call_split See protocol

[…] ise BLASTp and homolog clustering by CD-HIT []. Orthologous protein sequences were aligned using MUSCLE [, ]. Using the BIOALN utility of the BbWrapper toolkit (https://metacpan.org/release/ROCKY/Bio-BPWrapper-1.02), the protein alignments were concatenated and an approximate maximum likelihood tree was inferred using FastTree []. The resulting tree was re-rooted using orthologues from relapsing-f […]

BpWrapper institution(s)
Department of Biological Sciences, Hunter College, City University of New York, NY, USA; Graduate Center, City University of New York, NY, USA; Graduate Program in Bioinformatics, Boston University, Boston, MA, USA; Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark; Department of Physiology and Biophysics & Institute for Computational Biomedicine, Weil Cornell Medical College, New York, NY, USA
BpWrapper funding source(s)
Supported by Public Health Service grants AI107955 from the National Institute of Allergy and Infectious Diseases (NIAID) and the grant MD007599 (to Hunter College) from the National Institute on Minority Health and Health Disparities (NIMHD) of the National Institutes of Health (NIH) of the United States of America.

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