Begin forwarded message:
From: Shibu John <shibujohn82@gmail.com> Date: May 24, 2010 8:25:35 AM EDT To: Anton Nekrutenko <anton@bx.psu.edu> Subject: To get the gene name from BED file
Hi, How can I get the gene names for the whole exome locations ( hg18)..
******************** chr1 58932 59892 chr1 357510 358470 chr1 610947 611907 chr1 851160 851280 chr1 855395 855608 chr1 856246 856366 chr1 860956 861196 ********************
I used the "Profile Annotations for a set of genomic intervals".. But I am not getting proper output...
I just want the at least gene name in the fourth column for each location..like this ************************** chr1 58932 59892 OR4F5:ccds|CCDS30547.1 chr1 357510 358470 OR4F16:ccds|CCDS41220.1 chr1 610947 611907 OR4F16:ccds|CCDS41221.1 chr1 851160 851280 SAMD11:ccds|CCDS2.2 chr1 855395 855608 SAMD11:ccds|CCDS2.2 chr1 856246 856366 SAMD11:ccds|CCDS2.2 chr1 860956 861196 SAMD11:ccds|CCDS2.2 ******************
Can you help me to get this information from galaxy?
Thanks, Shibu
On Thu, May 20, 2010 at 2:52 PM, Anton Nekrutenko <anton@bx.psu.edu> wrote: Shibu:
We experienced disk problems overnight. Galaxy is back to normal.
Tx,
anton galaxy team
Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org