Hi again Hari - I'm just starting to understand what you're aiming to do now :)
On 12/09/2014 12:54, hari jayaram wrote: > When I have a whole sub section of an alignment selected.Then I go to > Selection--Output to Textbox- Fasta. > The resulting Fasta file has the sequence start stop feature for the > whole sequence and not for the selected region. hmm. That's a bug (http://issues.jalview.org/browse/JAL-1486) that I haven't quite worked out how to elegantly fix do to some technical wrinkles in the way the parser is called. > Any ideas how I can get the Fasta output to have the start stop for > the selection. Or maybe I need to use a group and output to a new > alignment? it's probably easiest if we just fix the bug in the 'next release' branch. It's already scheduled anyhow! > What I want is to realign a sub-section of an alignment in a new > Jalview window and preserve the residue numbers hmm. You could just select the region, copy and then paste to a new window - that will preserve numbering. You could also simply hide the regions you don't want to align, and then align the visible portion. Jalview will preserve the hidden columns in the new alignment so you keep the context. Jim. _______________________________________________ Jalview-discuss mailing list [email protected] http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss
