Balík: fasta3 (36.3.8i.14-Nov-2020-1)

[ Zdroj: fasta3  ]

tools for searching collections of biological sequences

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/.

Ostatné balíky súvisiace s balíkom fasta3

• dep: libc6 (>= 2.34)

  knižnica GNU C - zdieľané knižnice
  tiež virtuálny balík poskytovaný balíkom libc6-udeb

• dep: python3

  interactive high-level object-oriented language (default python3 version)

• rec: r-base-core

  jadro GNU R na štatistické výpočty a grafický systém

• sug: bedtools

  suite of utilities for comparing genomic features

• sug: libdbd-mysql-perl

  rozhranie databáz MariaDB/MySQL pre jazyk Perl 5

• sug: libdbi-perl

  rozhranie k databáze Perl (DBI)

• sug: libhtml-tableextract-perl

  modul na extrakciu obsahu tabuliek HTML

• sug: libjson-perl

  modul na prácu s údajmi vo formáte JSON

• sug: liburi-encode-perl

  modul jazyka Perl na kódovanie a dekódovanie reťazcov do URI

• sug: libwww-perl

  jednoduché a konzistentné rozhranie k www

• sug: libxml-twig-perl

  Perl module for processing huge XML documents in tree mode

• sug: ncbi-blast+

  next generation suite of BLAST sequence search tools

• sug: perl

  Practical Extraction and Report Language od Larryho Walla

• sug: python3-mysqldb

  rozhranie jazyka Python k MySQL

Stiahnuť fasta3

Stiahnuť pre všetky dostupné architektúry

Architektúra	Veľkosť balíka	Nainštalovaná veľkosť	Súbory
armel	807.9 kB	6,924.0 kB	[zoznam súborov]