I want to use the script perl of Mutation Taster to make a batch analysis. The file in input ask the gdna coordinate but I have only proteic coordinates.
Could you tell me how to convert Acid amine position in gDNA position for Mutation Taster ( http://www.mutationtaster.org/BatchQueries.html ) ?
For this you need a gene annotation source, if your model is known (human, mouse, ...) you can use Ensembl, UCSC, etc to convert your coordinates (some scripting will be required, perhaps). If not, well, you need to map your peptides to your reference genome or assembly, you can use tblast for that.