last-align
genome-scale comparison of biological sequences
Command lineScience
Not tested on a device yet. What that means
Commands in the package
fasta-nrfastq-interleavelast-dotplotlast-map-probslast-merge-batcheslast-pair-probslast-postmasklast-splitlast-trainlastallastdbmaf-convertmaf-cutmaf-joinmaf-linkedmaf-sortmaf-swapparallel-fastaparallel-fastq
About last-align
From Debian's package description
LAST is software for comparing and aligning sequences, typically DNA or protein sequences. LAST is similar to BLAST, but it copes better with very large amounts of sequence data. Here are two things LAST is good at:
- Comparing large (e.g. mammalian) genomes.
- Mapping lots of sequence tags onto a genome.
The main technical innovation is that LAST finds initial matches based on their multiplicity, instead of using a fixed size (e.g. BLAST uses 10-mers). This allows one to map tags to genomes without repeat-masking, without becoming overwhelmed by repetitive hits. To find these variable-sized matches, it uses a suffix array (inspired by Vmatch). To achieve high sensitivity, it uses a discontiguous suffix array, analogous to spaced seeds.
From Debian's description of the last-align package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libstdc++6zlib1gpython3
Recommends
python3-pilparallel
Related apps
- gdal-binGeospatial Data Abstraction Library - Utility programsCommand line
- QGIS DesktopGeographic Information System (GIS)
- exonerategeneric tool for pairwise sequence comparisonCommand line
- lokiMCMC linkage analysis on general pedigreesCommand line
- hdf5-toolsHDF5 - Runtime toolsCommand line
- ncbi-blast+next generation suite of BLAST sequence search toolsCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the last-align package, under that package's license.
- Description: Debian's description of the last-align 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.