Go Back   Science Forums Biology Forum Molecular Biology Forum Physics Chemistry Forum > Molecular Research Topics Forum > Bioinformatics
Register Search Today's Posts Mark Forums Read

Bioinformatics Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


Perl database parsing

Perl database parsing - Bioinformatics

Perl database parsing - Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


Reply
 
LinkBack Thread Tools Display Modes
  #1  
Old 04-25-2011, 11:53 PM
Pipette Filler
Points: 6, Level: 1 Points: 6, Level: 1 Points: 6, Level: 1
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: Apr 2011
Posts: 1
Thanks: 0
Thanked 0 Times in 0 Posts
Question Perl database parsing



Hello all,

I am trying hard to write this script in perl for 2 days, but to no avail
What I need to do is to parse uniprot database for transmembrane proteins that are not "Potential" or "By similarity". I have a working code that gets all such entries where TRANSMEM and Potential are not on the same line, but the trick is that sometimes "Potential" or "By similarity" are on the next line, or even the third line of this part's description.
Should I post my code here? I would really appreciate any hints!!
Reply With Quote
  #2  
Old 04-26-2011, 01:24 AM
admin's Avatar
Administrator
 
Join Date: Nov 2005
Posts: 1,418
Thanks: 883
Thanked 68 Times in 58 Posts
Default Re: Perl database parsing

Hey there welcome,
If you post your code I am sure someone can help get you a fix

cheers
Reply With Quote
  #3  
Old 05-07-2011, 10:58 PM
Pipette Filler
Points: 208, Level: 4 Points: 208, Level: 4 Points: 208, Level: 4
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: May 2011
Posts: 6
Thanks: 0
Thanked 1 Time in 1 Post
Default Re: Perl database parsing

Hello.

Yeah sure please post your code and I might be able to help you out on it.
Reply With Quote
Reply

Tags
database , parsing , perl , protein , transmembraneprotein


Thread Tools
Display Modes

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off
Trackbacks are On
Pingbacks are On
Refbacks are On

Forum Jump

Similar Threads
Thread Thread Starter Forum Replies Last Post
Pathway database curator position at Gramene Pankaj Jaiswal Arabidopsis and Plant Biology 0 10-24-2008 05:40 PM
A Database Curator Position Available at TAIR Sue Rhee Arabidopsis and Plant Biology 0 07-11-2007 05:12 PM
plant metabolic pathway database curator position available Sue Rhee Arabidopsis and Plant Biology 0 05-14-2007 08:24 PM
PLACE (plant cis-element motif) database: final release Kenichi Higo Arabidopsis and Plant Biology 0 02-01-2007 11:56 AM
Sci.chem FAQ - Part 2 of 7 Bruce Hamilton Chemistry Forum 0 01-15-2004 09:07 AM


All times are GMT. The time now is 03:47 AM.


Powered by vBulletin® Version 3.8.4
Copyright ©2000 - 2014, Jelsoft Enterprises Ltd.
Copyright 2005 - 2012 Molecular Station | All Rights Reserved
Page generated in 0.12970 seconds with 16 queries