From b24e3caf5917a7773f4816bb6da429656ef9ca94 Mon Sep 17 00:00:00 2001 From: Carsten Date: Thu, 1 Oct 2020 17:49:42 +0200 Subject: [PATCH] edit readme --- README.md | 9 ++++++++- 1 file changed, 8 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index 339de75..5e23bc8 100644 --- a/README.md +++ b/README.md @@ -1 +1,8 @@ -# codon_harmonization \ No newline at end of file +# codon_harmonization +Create/Convert and visualize codon usage tables based on genbank files ('gb') or existent tables from 'kazusa.or.jp'. For generation of codon usage tables via genbank, consider only CDS's with at least 300 bp. Optimize the codon usage of your gene not by maximizing the codon frequency, but by adapting a combination of similar codon frequency and relative adaptiveness values present in the original host organism. Change startcodons to 'ATG'. + +# Notes: +For conversion of codon usage tables from kazusa.or.jp you need to check the 'A style like CodonFrequency output in GCG Wisconsin PackageTM' option, then copy and save the output as a 'csv' file. +Requires Python3 and modules: +- Biopython +- matplotlib \ No newline at end of file