----------------------------------------
> From: [email protected]
> To: [email protected]
> Date: Fri, 7 May 2010 09:36:49 -0400
> Subject: Re: [BiO BB] program for sequence length
>
> Check out the Scriptome (yes, this is an advertisement.) at
> http://sysbio.harvard.edu/csb/resources/computational/scriptome/ , which is a
> set of Perl one-liners you cut and paste onto your command line to do bio-y
> text-y thigns.
I hadn't thought of this before but it is a good idea if you can search it
easily, I often use google for
sed/awk one liners for stuff like this and its a great way to learn the tools
and get your work done.
You seem to have a bit more than flat lists of one-liners but off hand I'd
think this would be
a generally good idea. Now to argue," you should have done that in
{perl,awk,sed,java,c++} instead of {perl, awk, sed, java, c++}"
LOL
>
> Use the change_fasta_to_tab tool to change your fasta to a tab-delimited file
> with ID, description, sequence. Then use the calc_col_length tool on the
> result, which will add another column giving the length of the sequence
> column. You can throw that into excel and hide the sequence column (or use
> choose_cols_to_delete to make a file without the seqeuences themselves) and
> then read through it at your leisure.
>
> Feel free to contact me offline for details.
>
> -Amir Karger
>
>> -----Original Message-----
>> From: [email protected] [mailto:bbb-
>> [email protected]] On Behalf Of Pankaj Khurana
>> Sent: Wednesday, May 05, 2010 5:16 AM
>> To: [email protected]
>> Subject: [BiO BB] program for sequence length
>>
>> Hi all,
>>
>> I have a few 1000 fasta files. I would like to get the list showing
>> the
>> sequence name and their respective lengths.
>> Is there a program for this?
>> I can write one but why reinvent the wheel.
>> Thanking all in advance
>>
>> Regards,
>> Pankaj
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>
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