From 20cc8e440a21cd4ea800573e7fc1edeebc49444d Mon Sep 17 00:00:00 2001 From: Yuri Victorovich Date: Thu, 24 Nov 2022 19:12:18 -0800 Subject: [PATCH] biology/barrnap: Update descr --- biology/barrnap/pkg-descr | 14 ++++++++------ 1 file changed, 8 insertions(+), 6 deletions(-) diff --git a/biology/barrnap/pkg-descr b/biology/barrnap/pkg-descr index bec4ff368560..7ba80681fff3 100644 --- a/biology/barrnap/pkg-descr +++ b/biology/barrnap/pkg-descr @@ -1,6 +1,8 @@ -SIMD-vectorized implementation of the Viterbi algorithm for profile HMM -alignment and introduced various other speed-ups. This accelerated HHsearch by a -factor 4 and HHblits by a factor 2 over the previous version 2.0.16. HHblits3 is -~10x faster than PSI-BLAST and ~20x faster than HMMER3. Jobs to perform HHsearch -and HHblits searches with many query profile HMMs can be parallelized over cores -and over servers in a cluster using OpenMP and message passing interface (MPI). +Barrnap predicts the location of ribosomal RNA genes in genomes. It supports +bacteria (5S,23S,16S), archaea (5S,5.8S,23S,16S), metazoan mitochondria +(12S,16S) and eukaryotes (5S,5.8S,28S,18S). + +It takes FASTA DNA sequence as input, and write GFF3 as output. It uses the new +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.