K mdiff, large-scale and user-friendly differential k-mer analyses.
Ontology highlight
ABSTRACT: Summary
Genome wide association studies elucidate links between genotypes and phenotypes. Recent studies point out the interest of conducting such experiments using k-mers as the base signal instead of single-nucleotide polymorphisms. We propose a tool, kmdiff, that performs differential k-mer analyses on large sequencing cohorts in an order of magnitude less time and memory than previously possible.Availabilityand implementation
https://github.com/tlemane/kmdiff.Supplementary information
Supplementary data are available at Bioinformatics online.
SUBMITTER: Lemane T
PROVIDER: S-EPMC9750116 | biostudies-literature | 2022 Dec
REPOSITORIES: biostudies-literature
Publications
k mdiff, large-scale and user-friendly differential k-mer analyses.
Lemane Téo T Chikhi Rayan R Peterlongo Pierre P
Bioinformatics (Oxford, England) 20221201 24
<h4>Summary</h4>Genome wide association studies elucidate links between genotypes and phenotypes. Recent studies point out the interest of conducting such experiments using k-mers as the base signal instead of single-nucleotide polymorphisms. We propose a tool, kmdiff, that performs differential k-mer analyses on large sequencing cohorts in an order of magnitude less time and memory than previously possible.<h4>Availabilityand implementation</h4>https://github.com/tlemane/kmdiff.<h4>Supplementar ...[more]
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