Question: Convert .txt in to .bed format to upload into Galaxy
0
gravatar for c.s.karandeni-dewage
2.6 years ago by
c.s.karandeni-dewage0 wrote:

I am trying to get flanking sequence of a list of SNPs. I have the list of SNPs in a excel which I need to convert to the bed format. I looked up for some solution on-line but was not successful. I appreciate any advice on this issue. Thank you.   

galaxy • 2.8k views
ADD COMMENTlink modified 2.6 years ago by matthias.desmet150 • written 2.6 years ago by c.s.karandeni-dewage0

CKP! i have the same problem. Have you find the solution at that problem? Thank u

ADD REPLYlink written 5 months ago by simomll0
1
gravatar for matthias.desmet
2.6 years ago by
Belgium
matthias.desmet150 wrote:

Hi,


I'm not aware of any tools that can format an excel file to bed. You'll have to manually format the columns following the BED specification (look here: https://genome.ucsc.edu/FAQ/FAQformat.html#format1), export your file to a tab delimited format and manually add the .bed extension.

M

ADD COMMENTlink written 2.6 years ago by matthias.desmet150

Dear Matthias,

Thanks much for the answer. I did try this before and when I uploaded the file onto Galaxy, it appeared as '.bed.txt'. So, I thought that it would not work. Anyway, it worked at the end. Thanks again. 

CKD

ADD REPLYlink written 2.6 years ago by c.s.karandeni-dewage0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 104 users visited in the last hour