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FJD-CEPH / aCNViewer

Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
GNU General Public License v3.0
28 stars 12 forks source link

Percentage of CNV gain/loss plot #8

Open parvathisudha opened 1 year ago

parvathisudha commented 1 year ago

Hi,

Thank you for this tool to summarize the copy number for multiple sample. It works great! I got a question. In my CNV analysis for loss, we have only deletion or deep deletion, which is 1 or 0 and normal pliody is 2. In the plot for percentage of copy number gain or loss, I believe you kept normal ploidy as 0 instead of 2, and any gain should be > 0 and loss/ deletion will be less than 0. But here, I see the ploidy values -3, -4 etc. Can you please explain how this values came? Please correct me if my understanding is wrong.

Thanks Parvathi.

tanbiswas commented 5 months ago

Hi Parvathi, Can you share how did you install the tool? I am not able to run it.

Thanks, Tanay

parvathisudha commented 5 months ago

Hi Tanay,

I installed it directly from source and used Python/2.7 to run the module.

Thanks! Parvathi.