For your full 9-column GTF file, it is, as you have determined, tab-delimited
for the 9 columns.  In the ninth you can place any value tag pairs with
semi-colon ; delimiter.  Beware your excel produced file does not have
hidden characters that can upset the balance.  View your file in
an editor that can show the hidden characters, or on the command line:

cat -A yourFile.gtf | less

to see the hidden characters.  You should only see the 8 tab delimiters.


----- Original Message -----
From: "Noa Sher" <>
To: "Hiram Clawson" <>
Sent: Sunday, December 4, 2011 11:54:54 AM
Subject: Re: [galaxy-user] there was a wrong link in my previous mail - gtf 
file        issues

Hi Hiram, 

I managed to extract the columns in a different order (albeit I did it in excel 
and not using command line) but then the 9th column (attributes) of gtf is what 
I had problems with 


The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

Reply via email to