reference methylome

[robinycfang]

Dear Dr. Liu,

I am looking at line 24 in src/R/TissueOfOriginExampleScript.R for tissue deconv:

raw.1kb<-read.table("b37.autosome.cpgIsland_plus_shore_1kb_intervals.add_value.methy.wgbs_ref_14_samples.bed.gz",sep="\t",header=F)

If I understand correctly, you generated this bed from the bw files from ref_panel_wgbs.tar that you uploaded? May I confirm you used all the 1kb bins from cpg islands, and filtered to find the most variable bins? It would be great to include other tissue types too!

Thanks again!