IUBio Biosequences .. Software .. Molbio soft .. Network News .. FTP

WANTS: Description of MSF format

B.L.Cohen gbga13 at udcf.gla.ac.uk
Fri Aug 19 03:37:07 EST 1994


In article <Cup95C.Avs at usenet.ucs.indiana.edu>,
gilbertd at sunflower.bio.indiana.edu (Don Gilbert) wrote:

> 
> readseq will read & write GCG's MSF format.  


Yes, this is true, but I think that one must beware of two points: 

1.  If your data-files are alignments and you have used "-" for gaps,
Readseq will not replace them and GCG will not accept them.   You will need
to replace "-" with "." by text-editing.

2.   Readseq does not appear to calculate the same checksums as GCG (and if
your files have originated from SeqApp, the checksums will appear as = 0). 
 Therefore Readeq-converted MSF files do need to be put through GCG
Reformat with the /MSF switch before they will be accepted by GCG execution
programs such as Plotsimilarity.   

-- 
Dr Bernard L. Cohen          Phone (+44) (0)41 339 8855 ext. 5103/5101
Genetics Dept.,              Fax               330 5994
University of Glasgow
Church St.,
Glasgow G11 5JS
Scotland, UK.



More information about the Info-gcg mailing list

Send comments to us at biosci-help [At] net.bio.net