CoreTracker, a codon reassignment tracker
CoreTracker detects evidences of codon reassignment from the protein repertoire of a set of genomes by successively applying different algorithms. It’s a filtering approach that explore all possible reassignments in every genomes from the input set, and retain only the most promising one. ...Tags: CoreTracker, codon, reassignment, tracker
2493 days ago
Generate interactive codon usage plots
Generate interactive codon usage plots as used at ensembl.lepbase.org. The input file format can be generated from an Ensembl database using the export_json.pl script from the easy-import pipeline. live demoTags: Generate, interactive, codon, usage, plots
2250 days ago
Tags: %MinMax, tool, calculating, synonymous, codon, usage, impact, protein, folding
2165 days ago
Tags: analyzing, codon, usage
1632 days ago
CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R
CRBHits is a coding sequence (CDS) analysis pipeline in R (R Core Team, 2019). It reimplements the Conditional Reciprocal Best Hit (CRBH) algorithm crb-blast and covers all necessary steps from sequence similarity searches, codon alignments to Ka/Ks calculations and synteny. The new R package tar...Tags: CRBHits, Conditional, Reciprocal, Best, Hits, Codon, Alignments, Ka/Ks, R
1262 days ago