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Results for "codon"

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• • Abhimanyu Singh@abhimanyu

  

  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

  2507 days ago

• • Jit@jit.aber

  

  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 demo

  Tags: Generate, interactive, codon, usage, plots

  2264 days ago

• • Surabhi Chaudhary@surabhi

  

  %MinMax: A versatile tool for calculating and comparing synonymous codon usage and its impact on protein folding.

  %MM calculates whether a given gene sequence encodes amino acids using the most common codons possible, the least common codons possible, or (most typically) some combination of these extremes. See our PLoS ONE paper for more details on how the %MinMax algorithm works. %MinMax results are ave...

  Tags: %MinMax, tool, calculating, synonymous, codon, usage, impact, protein, folding

  2179 days ago

• • Shruti Paniwala@shruti

  

  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

  1276 days ago