Hi,
My question is about "operating on genomic intervals, Coverage" tool. I wanted a csv list of identifiers (c4) in the second dataset that cover each interval in the first dataset. How would I go about getting such a list?
Thank you so much in advance. Best, Charu Charu Gupta Kumar, Ph.D.
Hello Charu,
To get the identifiers from column 4 into a single, tab delimited list from an interval/bed file, use the "Group" tool, like this:
To convert the tabular delimiter to a comma, use a text editor after download.
Galaxy in a local install could also be modified to do the replace, I can think of a few places - with "Convert delimiters" in Text Manipulation" being perhaps the simplest choice to customize.
Best,
Jen Galaxy team
On 3/31/13 11:10 AM, Kumar, Charu Gupta wrote:
Hi,
My question is about "operating on genomic intervals, Coverage" tool. I wanted a csv list of identifiers (c4) in the second dataset that cover each interval in the first dataset.
How would I go about getting such a list?
Thank you so much in advance.
Best,
Charu
Charu Gupta Kumar, Ph.D.
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:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
To search Galaxy mailing lists use the unified search at:
galaxy-user@lists.galaxyproject.org