seqed?

[Daniel Schlieper]

Dear Gary, 

thank you very much. Yes mse is a bit hidden, but Peter Rice was as kind
as to point me to that. In total, mse seems to be much better than seqed,
and I will be happy to use it. 

Just in case if there is anybody interested in even improving it, there
might two minor improvments possible:

1. There could be a check feature as in seqed. For example (from seqed):

     aacgggttaaggcct
        ^      ^^^^
     aaccggttaaccggt
....|.........|.........|....
    0        10        20 


2. There could be a way to read an empty (or not yet existing file). Now
it says:

Unix % mse i.seq
Multiple Sequence Editor
Error: failed to open filename i.seq 
Error: Unable to read sequence 'i.seq'

Many thanks and best regards, Daniel
 
--
Daniel Schlieper               MRC Laboratory of Molecular Biology
daniel at mrc-lmb.cam.ac.uk       Hills Road, Cambridge CB2 2QH, UK
Tel.: +44 1223 252969          FAX: +44 1223 213556 
WWW: http://www2.mrc-lmb.cam.ac.uk/groups/JYL/index.html

On Fri, 17 May 2002, Gary Williams, Tel 01223 494522 wrote:

> 
> Try 'mse
> http://www.uk.embnet.org/Software/EMBOSS/EMBASSY/MSE/mse.html
> 
> This is an EMBASSY program, so has to be set up separately to the main
> EMBOSS distribution, which is why you may not have seen it.
> 
> Gary
> 
> Daniel Schlieper wrote:
> > 
> > Hello,
> > 
> > I really like emboss, and I use it as much as I can. In fact, the only
> > reason to start a GCG session is seqed. I couldn't find anything like it
> > in emboss. tfm newseq writes: "You wouldn't want to type a long sequence
> > in by hand, anyway, would you?" Maybe I am old fashioned, but yes, I do.
> > As I can type quickly, 1000 nt are not a problem, and sometimes the only
> > way to get the sequence file.
> > 
> > But this can only be done with a program that not only allows to type in
> > nucleotides, but also to check them, to look for given sequences
> > and so on. It will be even more helpfulll if it ignores blanks, carriage
> > returns and numbers (for cut-and-paste).
> > 
> > So I would be glad if you please add a seqed clone to the emboss suite.
> > 
> > Best regards, Daniel
> > 
> > --
> > Daniel Schlieper               MRC Laboratory of Molecular Biology
> > daniel at mrc-lmb.cam.ac.uk       Hills Road, Cambridge CB2 2QH, UK
> > Tel.: +44 1223 252969          FAX: +44 1223 213556
> > WWW: http://www2.mrc-lmb.cam.ac.uk/groups/JYL/index.html
> 
> -- 
> Gary Williams               Tel: +44 1223 494522  Fax: +44 1223 494512
> mailto:G.Williams at hgmp.mrc.ac.uk            http://www.hgmp.mrc.ac.uk/
> Bioinformatics,MRC HGMP Resource Centre,Hinxton,Cambridge, CB10 1SB,UK
> 
>