ABMapper specifications

Information


Unique identifier OMICS_01238
Name ABMapper
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Some reads.
Input format BWA,SAM,FASTA,FASTQ
Output data The alignment details, junction sites, putative locations of repetitive reads.
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, Perl
Computer skills Advanced
Stability No
Maintained No

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Publication for ABMapper

ABMapper in publication

PMCID: 3226252
PMID: 21988959
DOI: 10.1186/1471-2105-12-S5-S2

[…] while groups 2 and 3 are difficult to resolve simply by alignment. the gt-based estimation we have proposed here could help mitigate such selection. we took groups 2 and 3 into account by running abmapper [] on repetitive reads that could be mapped for more than 300 times onto the genome. when tracing back these reads to the mapping result by bwa, we found all these reads were tagged […]


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ABMapper institution(s)
Hong Kong Bioinformatics Centre, The Chinese University of Hong Kong, Shati, China; School of Life Sciences, The Chinese University of Hong Kong, Shati, China; Department of Computer Science and Engineering, The Chinese University of Hong Kong, Shati, China; School of Biomedical Sciences, The Chinese University of Hong Kong, Shati, China
ABMapper funding source(s)
Supported by a Focused Investment Scheme of the Chinese University of Hong Kong; and a General Research Fund (GRF461708) from the Research Grant Committee, Hong Kong SAR Government.

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