how to trim solid reads length?

[carmeyeii]

Lovely

Cheers.

[gringer]

I just feel, there must be something wrong with bioinformatics,
if cutting the length of a sequence gets a thread here.

Let's reiterate what westerman said:

Trimming is trivial to do in perl or another language.... it will take less time to write the program than to respond back to this message.

Or, for that matter, reading through all the posts in this thread, then asking if anyone has thought up their new favourite way to trim reads to a particular length.

[gsgs]

I don't understand. "trim" = cut ? zurechtstutzen
Nor do I know/understand Emboss,Galaxy,layer 3,
double-encoding,fastx.
I just feel, there must be something wrong with bioinformatics,
if cutting the length of a sequence gets a thread here.

[carmeyeii]

Are there any new ways to do this?

[gringer]

I've managed to do it by double-encoding, passing through the fastx-toolkit, then reversing the double-encoding.

[lei]

OK, I wrote one, but not so fast, that's why I ask here to check whether there is some tool to do it already.

[westerman]

No tools that I know of. Both Emboss and Galaxy do not seem to have a way (although there are so many programs in both that it is hard to tell.) Trimming is trivial to do in perl or another language. If you are a "layer 3" bioinformatics person (see http://www.homolog.us/blogs/?p=85) then it will take less time to write the program than to respond back to this message. :-)

[lei]

are there any tools available to trim solid reads length? for example, I want to extract first 30bp.
Thanks!