Pakket: sortmerna (4.3.7-1 en anderen)

[ Bron: 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 aan sortmerna gerelateerde pakketten

• dep: libc6 (>= 2.29) [x32]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6-udeb

  dep: libc6 (>= 2.38) [niet x32]

• dep: libgcc-s1 (>= 3.0) [niet i386]

  GCC support bibliotheek

  dep: libgcc-s1 (>= 4.2) [i386]

• dep: libgomp1 (>= 6) [x32]

  GCC OpenMP (GOMP) support library

• dep: librocksdb9.3 (>= 9.3.1) [niet x32]

  persistent Key-Value Store for Flash and RAM Storage

• dep: libstdc++6 (>= 13.1) [niet x32]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 5.2) [x32]

• dep: python3 [niet x32]

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

• dep: sse2-support [i386]

  CPU feature checking - require SSE2

• dep: zlib1g (>= 1:1.1.4) [niet x32]

  compressiebibliotheek - programma's

• rec: python3

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

sortmerna downloaden

Pakket downloaden voor alle beschikbare platforms

Platform	Versie	Pakketgrootte	Geïnstalleerde grootte	Bestanden
amd64	4.3.7-1+b2	571,9 kB	1.853,0 kB	[overzicht]
i386	4.3.7-1+b2	585,2 kB	1.971,0 kB	[overzicht]
x32 (unofficial port)	2.1-5	5.341,1 kB	47.217,0 kB	[overzicht]