word shuffle

[Gary Williams, Tel 01223 494522]

I think the following might approximate to what you require:


msbar -block 6 -inframe -minimum your_block_size -maximum
your_block_size -count 500

substitute 'your_block_size' with whatever the sizes of your blocks are.

You may or may not require the '-inframe' parameter. This starts every
block at a position in the sequence that is a multiple of the block
length.

Adjust the -count value for your purposes.

Regards,
Gary

diriano at ibun.unal.edu.co wrote:
> 
> Dear EMBOSSers
> 
> May be this is not the rigth list to place this question, but I think that
> somebody here could help me.
> 
> I need a program to shuffle some sequences, but not at base level, like EMBOSS
> shuffle, but at a word level.  I mean, I need a program that takes a sequence
> and a word of length "n", and outputs the sequence in which the order of the
> words of length "n" has been randomized.  I hope I was clear.
> 
> Any help is appreciated
> 
> Diego
> Riano

-- 
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, Hinxton, Cambridge, CB10 1SB, UK