how to generate file for '--cnv-file' in plot-intraSVs fuction?

XiaoTaoWang / EagleC

A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps

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how to generate file for '--cnv-file' in plot-intraSVs fuction? #37

Open 7insong opened 5 months ago

7insong commented 5 months ago

Hi, I want to use the 'plot-intraSVs' function, but how can I generate such a 'MCF7_merged.dedup.bam_ratio.bw' file for another dataset? I tried using the neoloopfinder 'calculate-cnv' to generate the '.CNV-profile.bedGraph' file, and then used 'bedGraphToBigWig' to convert it into a '.bw' file. However, in the resulting PNG, the CNV track is blank. How should I solve this problem?

qolba commented 3 months ago

hello, I stacked with the same problem. Have you found a solution?