ArticleBioinformatics advances2023
mStrain: strain-level identification of
Article in Bioinformatics advances, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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8 authors.
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Abstract
Motivation: High-resolution target pathogen detection using metagenomic sequencing data represents a major challenge due to the low concentration of target pathogens in samples. We introduced mStrain, a novel Definition: . Strain-level identification: Assigning the reads in the metagenomic sequencing data to an exactly known or most closely representative Lineage-level identification: Assigning the reads in the metagenomic sequencing data to a specific lineage on the phylogenetic tree. canoSNPs: The unique and typical SNPs present in all representative strains. Ancestor/derived state: An SNP is defined as the ancestor state when consistent with the allele of Availability and implementation: The code for running mStrain, the test dataset, and instructions for running the code can be found at the following GitHub repository: https://github.com/xwqian1123/mStrain.
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