iMOKA: k-mer based software to analyze large collections of sequencing data - LIRMM - Laboratoire d’Informatique, de Robotique et de Microélectronique de Montpellier Access content directly
Journal Articles Genome Biology Year : 2020

iMOKA: k-mer based software to analyze large collections of sequencing data

Abstract

iMOKA (interactive multi-objective k-mer analysis) is a software that enables comprehensive analysis of sequencing data from large cohorts to generate robust classification models or explore specific genetic elements associated with disease etiology. iMOKA uses a fast and accurate feature reduction step that combines a Naïve Bayes classifier augmented by an adaptive entropy filter and a graph-based filter to rapidly reduce the search space. By using a flexible file format and distributed indexing, iMOKA can easily integrate data from multiple experiments and also reduces disk space requirements and identifies changes in transcript levels and single nucleotide variants. iMOKA is available at https://github.com/ RitchieLabIGH/iMOKA and Zenodo https://doi.org/10.5281/zenodo.4008947.
Fichier principal
Vignette du fichier
s13059-020-02165-2.pdf (2.55 Mo) Télécharger le fichier
Loading...

Dates and versions

lirmm-02987774 , version 1 (04-11-2020)

Licence

Attribution

Identifiers

Cite

Claudio Lorenzi, Sylvain Barriere, Jean-Philippe Villemin, Laureline Dejardin Bretones, Alban Mancheron, et al.. iMOKA: k-mer based software to analyze large collections of sequencing data. Genome Biology, 2020, 21 (1), ⟨10.1186/s13059-020-02165-2⟩. ⟨lirmm-02987774⟩
141 View
121 Download

Altmetric

Share

Gmail Facebook X LinkedIn More