Hi I have been looking for a way to map peptide sequences onto alignments. I recently came across jalview and it looks like this might do it. I am particularly interested in the features list created by the searches. Here is what I want to achieve:
I have an alignment. I have long list of peptide sequences (>1000 peptides) divided into 6 separate groups. Most of these peptides will not be present in my alignment but some will. I want search the alignment for these peptides and mark up when a 100% match is found. I want to use 6 different colours for my 6 peptide groups. It looks like that it should be possible for me to define a feature list file which contains peptide sequence, peptide group and the colour I want for a group. But I don't know how to create and use such a feature list file. Any help would save me 100s of hours. I am currently manually shading each peptide onto alignments using GeneDoc. Thank you for your help. Best Wishes Manoj ----------------------------------------------------------------- Manoj Kumar PhD FHEA Research Fellow Faculty of Biology, Medicine and Health Michael Smith Building, University of Manchester Oxford Road, Manchester. M13 9PT. ------------------------------------------------------------------
_______________________________________________ Jalview-discuss mailing list [email protected] http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss
