Paketti: stringtie (2.2.1+ds-3 ja muut)

[ Source: stringtie  ]

assemble short RNAseq reads to transcripts

The abundance of transcripts in a human tissue sample can be determined by RNA sequencing. The exact sequence sampled may be random, depending on the technology used. And it may be short, i.e. shorter than the transcript. At some point, many shorter reads need to be assembled to the model the complete transcripts.

StringTie knows how to assemble of RNA-Seq into potential transcripts without the need of a reference genome and provides a quantification also of the splice variants.

Muut pakettiin stringtie liittyvät paketit

• dep: libc6 (>= 2.34)

  GNU-C-kirjasto: jaetut kirjastot
  myös näennäispaketti, jonka toteuttaa libc6-udeb

• dep: libgcc-s1 (>= 3.4)

  GCC:n apukirjasto

• dep: libhts3t64 (>= 1.17)

  C library for high-throughput sequencing data formats

• dep: libstdc++6 (>= 4.1.1)

  GNU standardi C++ -kirjasto, versio 3

• dep: python3

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

• rec: stringtie-examples

  Paketti ei saatavilla

• sug: cufflinks

  Transcript assembly, differential expression and regulation for RNA-Seq

Imuroi stringtie

Imurointi kaikille saataville arkkitehtuureille

Arkkitehtuuri	Versio	Paketin koko	Koko asennettuna	Tiedostot
i386	2.2.1+ds-3+b1	433.3 kt	1,284.0 kt	[tiedostoluettelo]