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PanTools specifications

Information


Unique identifier OMICS_12701
Name PanTools
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format FASTA,GFF
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Version 1.0
Stability Stable
Requirements
KMC2, JVM, MCL
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Sandra Smit <>

Publication for PanTools

PanTools citation

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Analysis of Plant Pan Genomes and Transcriptomes with GET_HOMOLOGUES EST, a Clustering Solution for Sequences of the Same Species

2017
PMCID: 5306281
PMID: 28261241
DOI: 10.3389/fpls.2017.00184

[…] developed, going from unaligned sequences, to blocks of multiple alignments or to k-mer collections (). an example of software able to represent an arbitrary pan-genome as a graph database would be pantools (). these algorithms ideally take complete chromosome arms as input and therefore can model the pan-genome at the base-pair level. however, when this kind of data is not available […]


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PanTools institution(s)
Bioinformatics Group, Wageningen University, Wageningen, Netherlands; Biosystematics Group, Wageningen University, Netherlands
PanTools funding source(s)
Supported by the Graduate School Experimental Plant Sciences (EPS) in the Netherlands.

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