Question: cis-eQTL Results Visualization
0
gravatar for fusion.slope
6.7 years ago by
fusion.slope240
fusion.slope240 wrote:

Hi Guys,

 

does some one know how to visualize cis-eQTL results?

 

I have found Reveal, ggbio, Locus Zoom, and eQTL VIEWER,but if someone of you know a specific tool or way could me very appreciated!!

 

Thanks,

Tommi

cis-eqtl visualization • 2.7k views
ADD COMMENTlink modified 6.7 years ago by 1234Jc4321450 • written 6.7 years ago by fusion.slope240

Could you be a bit more specific? what do you want to visualize of the cis eQTL results?

ADD REPLYlink written 6.7 years ago by Floris Brenk980
2
gravatar for 1234Jc4321
6.7 years ago by
1234Jc4321450
Quebec City
1234Jc4321450 wrote:

Maybe circos could be a good possibility.

ADD COMMENTlink modified 13 months ago by Ram32k • written 6.7 years ago by 1234Jc4321450
0
gravatar for fusion.slope
6.7 years ago by
fusion.slope240
fusion.slope240 wrote:

I would like to plot the cis-eQTL (in my case sv or snv in the first raw) according to the gene, the chromosome and the p-value

My output from the analysis is the following (just a couple of raw):

SNP                gene           beta                 t-stat               p-value                 FDR
sv:5D_2R_8053704   FBgn0085261    0.837400790585547    8.75459443500284     1.51150847617165e-10    0.000283829644969437
snv_2L_16728911    FBgn0263746    -1.02570190990405    -8.42601502266879    3.92573315034659e-10    0.000283829644969437
snv_2L_18698853    FBgn0032701    0.832966246295362    8.41717510096419     4.02856163830064e-10    0.000283829644969437
snv_2L_18698998    FBgn0032701    0.832966246295362    8.41717510096419     4.02856163830064e-10    0.000283829644969437
snv_4_413962       FBgn0262636    -0.792292810671725   -8.25417015175676    6.50016804751046e-10    0.000283829644969437

Thanks!!

ADD COMMENTlink modified 13 months ago by Ram32k • written 6.7 years ago by fusion.slope240
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