Paket: barrnap (0.9+dfsg-2)

[ Kaynak: barrnap  ]

rapid ribosomal RNA prediction

Barrnap (BAsic Rapid Ribosomal RNA Predictor) predicts the location of ribosomal RNA genes in genomes. It supports bacteria (5S,23S,16S), archaea (5S,5.8S,23S,16S), mitochondria (12S,16S) and eukaryotes (5S,5.8S,28S,18S).

It takes FASTA DNA sequence as input, and writes GFF3 as output. It uses the NHMMER tool that comes with HMMER 3.1 for HMM searching in RNA:DNA style. Multithreading is supported and one can expect roughly linear speed-ups with more CPUs.

Etiketler: Alan: Biyoloji, Biyoinformatik, Geliştirildiği dil: implemented-in::perl, interface::commandline, Rol: Program, Amaç: use::searching, works-with::biological-sequence

barrnap ile İlgili Diğer Paketler

• dep: bedtools

  suite of utilities for comparing genomic features

• dep: hmmer (>= 3.1)

  profile hidden Markov models for protein sequence analysis

• dep: perl

  Larry Wall's Practical Extraction and Report Language

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