mash
fast genome and metagenome distance estimation using MinHash
Command lineScience
Not tested on a device yet. What that means
Commands in the package
mash
About mash
From Debian's package description
Mash uses MinHash locality-sensitive hashing to reduce large biosequences to a representative sketch and rapidly estimate pairwise distances between genomes or metagenomes. Mash sketch databases effectively delineate known species boundaries, allow construction of approximate phylogenies, and can be searched in seconds using assembled genomes or raw sequencing runs from Illumina, Pacific Biosciences, and Oxford Nanopore. For metagenomics, Mash scales to thousands of samples and can replicate Human Microbiome Project and Global Ocean Survey results in a fraction of the time.
From Debian's description of the mash package, under that package's license.
Dependencies
Depends on
libc6libcapnp-1.1.0libgcc-s1libgsl28libmurmurhash2libstdc++6zlib1g
Related apps
- phymlPhylogenetic estimation using Maximum LikelihoodCommand line
- bali-phyBayesian Inference of Alignment and PhylogenyCommand line
- ctffindfast and accurate defocus estimation from electron micrographsCommand line
- cat-battaxonomic classification of contigs and metagenome-assembled genomes (MAGs)Command line
- prime-phylobayesian estimation of gene trees taking the species tree into accountCommand line
- veryfasttreeSpeeding up the estimation of phylogenetic trees from sequencesCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the mash package, under that package's license.
- Description: Debian's description of the mash package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
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