bioconda / packages / reparation_blast 1.0.9

A pipeline that detects novel open reading frames with ribseq data for bacteria.

Installers

Info: This package contains files in non-standard labels.

conda install

  • linux-64  v1.0.7
  • noarch  v1.0.9
To install this package with conda run one of the following:
conda install -c bioconda reparation_blast
conda install -c bioconda/label/cf201901 reparation_blast

Description

A pipeline that uses ribosome profiling data for a de novo open reading frame delineation in prokaryotic (bacterial) genomes. I changed the original reparation project to use the open-source blast tool (https://blast.ncbi.nlm.nih.gov/Blast.cgi) instead of the commercial usearch --ublast tool (https://drive5.com/usearch/manual/ublast_algo.html). I did this in order to add this tool to bioconda without having licensing issues with the commercial usearch -ublast tool. The original software was created at VIB-UGent Center for Medical Biotechnology and Lab of Bioinformatics and Computational Genomics (Biobix), University of Gent, Belgium, by Elvis Ndah. (https://github.com/Biobix/REPARATION). Be advised that the adapted version has slightly different results and is slower than the original reparation software.


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