Rcircos for Multiple tracks of Expression data
0
0
Entering edit mode
4.2 years ago
yifangt86 ▴ 40

Hello I am trying to plot expression data with Rcircos without an ideogram information. My dataframe is like this:

Chr     Start   End     Band            CSR1    CSR2    CSR3    MTR1    MTR2    MTR3
chr5B   16521   20994   AeCS5B01G000100 1821.8  739.6   1234.0  1146.2  1380.0  1229.4
chr5B   60616   61023   AeCS5B01G000200 104.2   60.0    30.2    17.2    56.0    43.1
chr5B   87107   88168   AeCS5B01G000300 0.0     0.0     0.0     0.0     0.0     0.0
chr5B   210311  215424  AeCS5B01G000400 519.4   191.7   306.1   353.8   277.1   386.2
chr5B   217914  219359  AeCS5B01G000500 322.7   79.9    237.0   201.1   276.6   265.3
chr5B   229460  233000  AeCS5B01G000600 497.8   261.9   436.8   625.3   403.7   278.7

I want to visualize the 6 samples as 6 tracks as from RCircos. The reason I do not have the ideogram is the genome is from de novo assembly with an approximate annotation, so that the gene coordinates may overlap to each other which violates the requirement of RCircos Ideogram. I appreciate any experience with this scenario. Thanks a lot!

Rcircos expression data multiple tracks ideogram • 1.2k views
ADD COMMENT

Login before adding your answer.

Traffic: 1157 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6