cis-eQTL Results Visualization

Question

[fusion.slope]

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

[Floris Brenk]

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

Answer 1

[1234Jc4321]

Maybe circos could be a good possibility.

Answer 2

[fusion.slope]

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!!