TAXAassign statistics
TAXAassign specifications
Information
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 |
Requirements |
GNU Parallel, Blastn, NCBI's nt database, BioSQL, sqlite3 and MySQL
|
Maintained | Yes |
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TAXAassign in publications
(2)[…] estimates for each genome bin., 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 (https://github.com/umerijaz/taxaassign), with some modified codes to improve efficiency and accuracy. using the improved script, we used deduced amino acid sequence information […]
[…] 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 (https://github.com/umerijaz/taxaassign). to find the phylogenetic distances between otus, we first multisequence aligned the otus against each other using mafft v7.040 [] and then used […]
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