hputnam / Meth_Compare

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create UpSet plot #62

Closed shellywanamaker closed 4 years ago

shellywanamaker commented 4 years ago

Pact draft 1:

ALL = all CpGs in the genome WGBS = compiled CpGs detected in WGBS samples RRBS = compiled CpGs detected in RRBS samples MBD = compiled CpGs detected in MBD samples *CpGs could be detected in just one sample or in multiple samples ( I merged sample bedgraphs using bedtools merge for each method)

Rmarkdown script here: https://github.com/hputnam/Meth_Compare/tree/master/analyses/UpsetPlot

still need to:

shellywanamaker commented 4 years ago

Included Mcap in the analysis and all QC of merged bedgraphs and union bedgraphs were good. This is noted in this jupyter notebook: https://github.com/hputnam/Meth_Compare/blob/master/scripts/Generate_UpsetPlot_input.ipynb.

Pact:

Mcap:

shellywanamaker commented 4 years ago

Updated Pact upset plot with annotations

shellywanamaker commented 4 years ago

Updated plots so label text isn't cutoff

a. Pact b. Mcap

shellywanamaker commented 4 years ago

UpsetPlotFig_draft3