PhyloCSF++: a fast and user-friendly implementation of PhyloCSF with annotation tools.
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- Record sourced from PubMed, PMID 34734986.
- Also identified by DOI 10.1093/bioinformatics/btab756 and PMC identifier 9991890.
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Abstract
PhyloCSF++ is an efficient and parallelized C++ implementation of the popular PhyloCSF method to distinguish protein-coding and non-coding regions in a genome based on multiple sequence alignments (MSAs). It can score alignments or produce browser tracks for entire genomes in the wig file format. Additionally, PhyloCSF++ annotates coding sequences in GFF/GTF files using precomputed tracks or computes and scores MSAs on the fly with MMseqs2. PhyloCSF++ is released under the AGPLv3 license. Binaries and source code are available at https://github.com/cpockrandt/PhyloCSFpp. The software can be installed through bioconda. A variety of tracks can be accessed through ftp://ftp.ccb.jhu.edu/pub/software/phylocsfpp/.
Medical subject headings
- Genome
- Software