spaln
splicing-aware transcript-alignment to genomic DNA
Command lineScience
Not tested on a device yet. What that means
Commands in the package
spalncompilddecompilddvnexinpotfitildkmersmakdbsmakmdmnpssmplotildrdnsortgrcdutn
About spaln
From Debian's package description
Spaln (space-efficient spliced alignment) is a stand-alone program that maps and aligns a set of cDNA or protein sequences onto a whole genomic sequence in a single job. It also performs spliced or ordinary alignment after rapid similarity search against a protein sequence database, if a genomic segment or an amino acid sequence is given as a query.
spaln supports a combination of protein sequence database and a given genomic segment and performs rapid similarity searches and (semi-)global alignments of a set of protein sequence queries against a protein sequence database. Spaln adopts multi-phase heuristics that makes it possible to perform the job on a conventional personal computer.
From Debian's description of the spaln package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libgsl28libstdc++6zlib1gspaln-data
Related apps
- salmidrapid Kmer based Salmonella identifier from sequence dataCommand line
- prankProbabilistic Alignment Kit for DNA, codon and amino-acid sequencesCommand line
- rsemRNA-Seq by Expectation-MaximizationCommand line
- dascrubberalignment-based scrubbing pipeline for DNA sequencing readsCommand line
- bitseqBayesian Inference of Transcripts from Sequencing DataCommand line
- sim4tool for aligning cDNA and genomic DNACommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the spaln package, under that package's license.
- Description: Debian's description of the spaln 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.