LSA – Metagenomic Read Partitioning by Latent Factor analysis

LSA

:: DESCRIPTION

LSA (Latent Strain Analysis) partitions reads into sets likely belonging to the same genome, using the covariance of k-mers across many samples.

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::DEVELOPER

The Alm lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • ¬†Linux
  • Python

:: DOWNLOAD

LSA

:: MORE INFORMATION

Citation

Cleary B, Brito IL, Huang K, Gevers D, Shea T, Young S, Alm EJ.
Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning.
Nat Biotechnol. 2015 Oct;33(10):1053-60. doi: 10.1038/nbt.3329. Epub 2015 Sep 14. PMID: 26368049; PMCID: PMC4720164.

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