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STEMSIM: a simulator of within-strain short-term evolutionary mutations for longitudinal metagenomic data.
- Source :
-
Bioinformatics . May2023, Vol. 39 Issue 5, p1-3. 3p. - Publication Year :
- 2023
-
Abstract
- Motivation As the resolution of metagenomic analysis increases, the evolution of microbial genomes in longitudinal metagenomic data has become a research focus. Some software has been developed for the simulation of complex microbial communities at the strain level. However, the tool for simulating within-strain evolutionary signals in longitudinal samples is still lacking. Results In this study, we introduce STEMSIM, a user-friendly command-line simulator of short-term evolutionary mutations for longitudinal metagenomic data. The input is simulated longitudinal raw sequencing reads of microbial communities or single species. The output is the modified reads with within-strain evolutionary mutations and the relevant information of these mutations. STEMSIM will be of great use for the evaluation of analytic tools that detect short-term evolutionary mutations in metagenomic data. Availability and implementation STEMSIM and its tutorial are freely available online at https://github.com/BoyanZhou/STEMSim. [ABSTRACT FROM AUTHOR]
Details
- Language :
- English
- ISSN :
- 13674803
- Volume :
- 39
- Issue :
- 5
- Database :
- Academic Search Index
- Journal :
- Bioinformatics
- Publication Type :
- Academic Journal
- Accession number :
- 164066711
- Full Text :
- https://doi.org/10.1093/bioinformatics/btad302