Paket: sortmerna (2.1-3)

[ Quellcode: sortmerna  ]

tool for filtering, mapping and OTU-picking NGS reads

SortMeRNA is a biological sequence analysis tool for filtering, mapping and OTU-picking NGS reads. The core algorithm is based on approximate seeds and allows for fast and sensitive analyses of nucleotide sequences. The main application of SortMeRNA is filtering rRNA from metatranscriptomic data. Additional applications include OTU-picking and taxonomy assignation available through QIIME v1.9+ (http://qiime.org - v1.9.0-rc1). SortMeRNA takes as input a file of reads (fasta or fastq format) and one or multiple rRNA database file(s), and sorts apart rRNA and rejected reads into two files specified by the user. Optionally, it can provide high quality local alignments of rRNA reads against the rRNA database. SortMeRNA works with Illumina, 454, Ion Torrent and PacBio data, and can produce SAM and BLAST-like alignments.

Andere Pakete mit Bezug zu sortmerna

• dep: libc6 (>= 2.14) [amd64]

  GNU-C-Bibliothek: Laufzeitbibliotheken
  auch ein virtuelles Paket, bereitgestellt durch libc6-udeb

  dep: libc6 (>= 2.4) [i386]

• dep: libgcc1 (>= 1:3.0) [amd64]

  GCC Support-Bibliothek

  dep: libgcc1 (>= 1:4.2) [i386]

• dep: libgomp1 (>= 4.9)

  Unterstützungsbibliothek für GCC OpenMP (GOMP)

• dep: libstdc++6 (>= 5.2)

  GNU-Implementierung der Standard-C++-Bibliothek (Version 3)

• dep: sse2-support [i386]

  prevent installation on processors without required instructions

• rec: python

  Interaktive objektorientierte Hochsprache (Python2-Version)

sortmerna herunterladen

Download für alle verfügbaren Architekturen

Architektur	Paketgröße	Größe (installiert)	Dateien
amd64	525,5 kB	997,0 kB	[Liste der Dateien]
i386	526,0 kB	1.039,0 kB	[Liste der Dateien]