[Bioperl-l] Parsing needle/water output
uludag at ebi.ac.uk
uludag at ebi.ac.uk
Fri May 15 21:09:16 UTC 2009
Hi Shalab,
> is there any way i can get the full id of the sequence from the water
output.
I checked emboss website and have a quick look into the relevant source
file but cannot find an option to adjust length of the sequence
identifiers written in alignment reports. For example prettyplot has
'maxnamelen' option for a similar purpose, a similar option seems to be
reasonable for alignment reports.
For now, as a workaround you can read sequence identifiers from your input
bioperl sequence objects. It seems EMBOSS doesn't change the order of
sequences.
Regards,
Mahmut
More information about the Bioperl-l
mailing list