fasta3
tools for searching collections of biological sequences
Command lineScience
Not tested on a device yet. What that means
Commands in the package
fasta36fastf36fastm36fasts36fastx36fasty36ggsearch36glsearch36lalign36map_dbssearch36tfastf36tfastm36tfasts36tfastx36tfasty36
About fasta3
From Debian's package description
The FASTA programs find regions of local or global similarity between Protein or DNA sequences, either by searching Protein or DNA databases, or by identifying local duplications within a sequence. Other programs provide information on the statistical significance of an alignment. Like BLAST, FASTA can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.
- Protein
- Protein-protein FASTA
- Protein-protein Smith-Waterman (ssearch)
- Global Protein-protein (Needleman-Wunsch) (ggsearch)
- Global/Local protein-protein (glsearch)
- Protein-protein with unordered peptides (fasts)
- Protein-protein with mixed peptide sequences (fastf)
- Nucleotide
- Nucleotide-Nucleotide (DNA/RNA fasta)
- Ordered Nucleotides vs Nucleotide (fastm)
- Un-ordered Nucleotides vs Nucleotide (fasts)
- Translated
- Translated DNA (with frameshifts, e.g. ESTs) vs Proteins (fastx/fasty)
- Protein vs Translated DNA (with frameshifts) (tfastx/tfasty)
- Peptides vs Translated DNA (tfasts)
- Statistical Significance
- Protein vs Protein shuffle (prss)
- DNA vs DNA shuffle (prss)
- Translated DNA vs Protein shuffle (prfx)
- Local Duplications
- Local Protein alignments (lalign)
- Plot Protein alignment "dot-plot" (plalign)
- Local DNA alignments (lalign)
- Plot DNA alignment "dot-plot" (plalign)
This software is often used via a web service at the EBI with readily indexed reference databases at http://www.ebi.ac.uk/Tools/fasta/.
From Debian's description of the fasta3 package, under that package's license.
Dependencies
Depends on
libc6python3
Recommends
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Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the fasta3 package, under that package's license.
- Description: Debian's description of the fasta3 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.