Hi Aurelie,
The dataset from the UCSC Table browser did not transfer completely,
which lead to the other errors. There is a limit to the number of rows
of data that can be extracted, to Galaxy or any other type of download.
It is around ~100k, but it depends on the data type. The UCSC group
would have the details.
To access human hg19 MAF data in Galaxy, use these tools, then proceed
with the rest of your analysis:
- Extract Pairwise MAF blocks given a set of genomic intervals
- Extract MAF blocks given a set of genomic intervals
Thanks for sending the link and hopefully this option will work for your
project,
Best,
Jen
Galaxy team
On 11/11/11 4:06 PM, Jennifer Jackson wrote:
Hi Aurelie,
Would you have time to share a history link containing the two types of
datasets for me? Use "Options -> Share or Publish", generate the link,
then email it back to me directly. Please note the dataset(s) with the
issue if not obvious (or make a note about it in the "info" field of the
dataset).
I will watch for your feedback,
Jen
Galaxy team
On 11/11/11 2:20 PM, 4urelie K wrote:
Hi,
When I import a multiz46way maf alignement from UCSC, if is is a whole
chromosome, then when I try to "Filter MAF blocks by Species" the list
of species does not appear. If I import a small region, it works...
Is it a question of size? Although it seems OK when I look at it, could
it be a problem in the maf format that I could solve?
Thank you,
Aurelie
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___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. 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:
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