Metalign: Efficient alignment-based metagenomic profiling via containment min hash

Version 0.12.5 | May 29, 2020

Metalign is a method for estimating the taxonomic composition and relative abundances of organisms in a metagenomic sample based on whole-genome shotgun sequencing reads.

For instructions on usage, please see the wiki: https://github.com/nlapier2/Metalign/wiki

Once you've completed installation, a quick example (with instructions) is available in the example/ folder.

If you use our software, please cite the paper, which can be found here:

LaPierre, N., Alser, M., Eskin, E. et al. Metalign: efficient alignment-based metagenomic profiling via containment min hash. Genome Biol 21, 242 (2020). https://doi.org/10.1186/s13059-020-02159-0