I am using USCS Table browser to get the names of all the genes present at specific chromosomal locations. I have more than 1000s of region with many are overlapping regions and am using batch query to retrieve the above. Is it possible to group the results based on the query?
For instance if the query is
chr1:1-11017172
chr1:100-11000000
chr14:8114295-8120760
Is it possible to get the results as
chr1:1-11017172 - Genes x,y,z,....
chr1:100-11000000 - Genes a,b,c....
chr14:8114295-8120760 - Genes l,m,n.... and so on.
Download gene table from UCSC from your coordinates as an input and upload it to GAlaxy tool
after this prepare coordinate file from your region as input same formate as the UCSC output upload this also into Galaxy
convert both file into tabular form in galaxy [from convert option]
on the left side u see Operate on Genomic Intervals
chose either JOIN or Merge that will do the work
Hi Aditya
Thanks a lot for the help. It works perfectly well.
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