Hi Mike,
Yes, to get the .wig file out of the data, select the first "892177"
lines. (Selecting "892178" would include the second track line, which
you don't want).
After looking one more time, not all data appears to be .wig. This is a
multiple track group file, labeled as .wig, but the sec
Jen,
A couple of uninformed questions. I gather from your response that the
author lab submitted a multiple track group .wig file instead of a
single track group .wig file, and that I need to generate a single
track group file before the bigwig conversion will work. So, with
regard to the
Hi Mike,
I apologize if I wasn't clear, but the 'Select' was to show you how to
identify the multi-track group wig files. I wanted to give you a way to
screen similar files going forward.
The wig-to-bigWig program in Galaxy comes from UCSC. It accepts .wig
files with a single track group as
Jennifer,
Thanks for your help. I ran the filter and sort tool as advised, and
then ran the wig to bigwig on the new history item generated by the
filter. This time I got a different error:
84: Wig-to-bigWig on data 83
0 bytes
An error occurred running this job:stdin is empty of data
Error
Hi Michael,
This particular .wig file has a data format problem that is the root
cause of the conversion error. Specifically, there is an extra track
line in the file. This can be found using unix tools with a grep or in
Galaxy with the tool "Filter and Sort -> Select" by matching the pattern
Hi,
I have hit a brick wall when trying to convert wig files from the GEO
to bigwig files. Each time I try (and I have tried many times since
October), I get the same error. For example, here is a downloaded wig
file, that I assigned to the mouse mm8 genome, and the error I got
when I tr
6 matches
Mail list logo
