TAXAassign statistics

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Citations per year

Number of citations per year for the bioinformatics software tool TAXAassign

Tool usage distribution map

This map represents all the scientific publications referring to TAXAassign per scientific context
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TAXAassign specifications


Unique identifier OMICS_21514
Name TAXAassign
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A nucleotide sequence.
Operating system Unix/Linux
Programming languages Perl, Python, Shell (Bash)
Computer skills Advanced
Version 0.4
Stability Stable
GNU Parallel, Blastn, NCBI's nt database, BioSQL, sqlite3 and MySQL
Maintained Yes




No version available


TAXAassign citations


A Large Scale Comparative Metagenomic Study Reveals the Functional Interactions in Six Bloom Forming Microcystis Epibiont Communities

Front Microbiol
PMCID: 5919953
PMID: 29731741
DOI: 10.3389/fmicb.2018.00746

[…] Open reading frames (ORFs) of each genome bin were predicted by Prodigal v2.6.3 in metagenomic mode. We implemented taxonomic assignments of the genome bins using TAXAassign v.0.4 (, with some modified codes to improve efficiency and accuracy. Using the improved script, we used deduced amino acid sequence information throu […]


The effect of DNA extraction methodology on gut microbiota research applications

BMC Res Notes
PMCID: 4960752
PMID: 27456340
DOI: 10.1186/s13104-016-2171-7

[…] e then taxonomically classified against the RDP database using the standalone RDPclassifier v2.6 [] with the default–minWords option of 5. For species level assignment, we have used NCBI Taxonomy and TAXAassign ( To find the phylogenetic distances between OTUs, we first multisequence aligned the OTUs against each other using mafft v7.040 [] and then used Fas […]

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