sumatra
fast and exact comparison and clustering of sequences
Command lineScience
Not tested on a device yet. What that means
Commands in the package
sumatra
About sumatra
From Debian's package description
With the development of next-generation sequencing, efficient tools are needed to handle millions of sequences in reasonable amounts of time. Sumatra is a program developed by the LECA. Sumatra aims to compare sequences in a way that is fast and exact at the same time. This tool has been developed to be adapted to the type of data generated by DNA metabarcoding, i.e. entirely sequenced, short markers. Sumatra computes the pairwise alignment scores from one dataset or between two datasets, with the possibility to specify a similarity threshold under which pairs of sequences that have a lower similarity are not reported. The output can then go through a classification process with programs such as MCL or MOTHUR.
From Debian's description of the sumatra package, under that package's license.
Dependencies
Depends on
libc6libsuma1
Related apps
- exonerategeneric tool for pairwise sequence comparisonCommand line
- toulbar2Exact combinatorial optimization for Graphical ModelsCommand line
- qsopt-exExact linear programming solverCommand line
- wisecomparison of biopolymers, like DNA and protein sequencesCommand line
- last-aligngenome-scale comparison of biological sequencesCommand line
- kraken2taxonomic classification system using exact k-mer matchesCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the sumatra package, under that package's license.
- Description: Debian's description of the sumatra package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.