FASTA format - No funny characters!!
John.Ledwith at CADUS.COM
Fri Nov 6 10:32:03 EST 1998
Thank you, François. But lets say I want to set $/ (the input record
separator) to ">". (Baba) O'Reilly says that you can set it to a
multi-character string, but "^>", "\n>", even "\s>", isnt cutting it (no
Sure, I can find all instances of /*>/ in a multi-FASTA file and replace
the derelict > with some innocent characters (I may start making it IAN
;-)), but that seems like excess time. So, can someone let me know a
good way to get around this? Or, as I asked before...
Don't put random >'s in FASTA headers!!!
John Ledwith, Bioinformatics
Cadus Pharmaceutical Corporation
john.ledwith at cadus.com
Voicemail: 914-467-6200 x448
From: pingouin at crystal.u-strasbg.fr
[SMTP:pingouin at crystal.u-strasbg.fr]
Sent: Friday, November 06, 1998 9:22 AM
To: bio-soft at net.bio.net
Subject: Re: FASTA format - No funny characters!!
<2D3428FD6CDFD111A72800104B2351B7242870 at weebo.cadus.com>,
John.Ledwith at CADUS.COM ("Ledwith, John") writes:
> As long as we are talking about it...
> I cannot count how many times I have come across a FASTA
header with a
> ">" in the middle of it. Can we please not let this happen
Well, I think that this is used in e-mail adresses and
sometimes in clone numbering, but, anyway, you just have
to check ^> and not *>
François Jeanmougin | groupe de bioinformatique /
tel:(+33) 3 88 65 32 71 | IGBMC BP 163 67404 Illkirch France
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