SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
How to download gene annotation from NCBI? jgarbe Bioinformatics 9 01-14-2015 11:26 AM
noiseq, where to download hg19 gene feature length? slowsmile Bioinformatics 4 01-22-2014 06:43 AM
the hg19 chromosome size in ncbi is different with UCSC? tintin306 Bioinformatics 1 04-10-2012 01:18 AM
gene location on UCSC vs NCBI nguyendofx Bioinformatics 2 01-28-2012 03:39 PM
SpliceMap Gene annotations file for hg19 trickytank Bioinformatics 0 01-18-2011 05:44 PM

Reply
 
Thread Tools
Old 10-11-2012, 05:55 AM   #1
narges
Member
 
Location: Finland

Join Date: Aug 2012
Posts: 29
Default retrieving NCBI hg19 gene length

Hi,
I have a file containing gene names (23400 names) in NCBI hg19 format and this file is obtained from RNA seq analysis using tophat and then HTSEQ. So this file contains the gene names and their associated count numbers. Now I need to have each of these genes length. For example if below is the first line of my file :

A1BG 200 93 246 102 86 46 58 85

I need to have also the A1BG length as well.
what is the efficient way of retrieving length of all genes listed in file using one of Bioconductor packages?
Thank you in advance
narges is offline   Reply With Quote
Reply

Thread Tools

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




All times are GMT -8. The time now is 06:25 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO