taxMaps statistics

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Citations per year

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Popular tool citations

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Tool usage distribution map

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Associated diseases

Associated diseases

taxMaps specifications

Information


Unique identifier OMICS_18083
Name taxMaps
Software type Pipeline/Workflow
Interface Command line interface
Input format BAM, FASTQ
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Stability Stable
Requirements
Numpy, SAMtools, cutadapt, PRINSEQ-lite, GEM, Krona
Maintained Yes

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Maintainer


  • person_outline AndrĂ© Corvelo <>

Additional information


Manual: https://github.com/nygenome/taxmaps#manual

Publication for taxMaps

taxMaps in publications

 (2)
PMCID: 4959514
PMID: 27048802
DOI: 10.1128/mBio.00431-16

[…] concentrated particles from infected e-11 culture cells were used as the template for illumina sequencing. reads from two ion torrent and two illumina libraries were taxonomically classified using taxmaps (https://github.com/nygenome/taxmaps) by mapping against the national center for biotechnology information’s (ncbi) nucleotide database, the ncbi refseq database (), the tilapia reference […]

PMCID: 4102619
PMID: 24608988
DOI: 10.1038/jid.2014.127

[…] ssc samples were enriched in genera of order sporidiobolales, including rhodotorula, rhodosporidium, and sporobolomyces., to determine the source of these differences between ssc and normal samples, taxmaps were generated to visualize the scores of the taxonomic categories inside the plant and fungal division (). average taxmaps for the normal samples showed malassezia globosa and trimorphomyces […]


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taxMaps institution(s)
New York Genome Center, New York, NY, USA
taxMaps funding source(s)
Partially supported by the Alfred P. Sloan Foundation.

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