0e016ca51069bf70ea5c9e08d7ef2fa4dd81a838
max
  Wed Feb 10 06:11:16 2021 -0800
adding makedoc for cadd track, refs #18492

diff --git src/hg/makeDb/doc/hg19.txt src/hg/makeDb/doc/hg19.txt
index fd37668..08a2824 100644
--- src/hg/makeDb/doc/hg19.txt
+++ src/hg/makeDb/doc/hg19.txt
@@ -34365,15 +34365,29 @@
 hgBbiDbLink hg19 fetalGeneAtlasCellTypes /gbdb/hg19/bbi/fetalGeneAtlas/cell_type.bb
 hgBbiDbLink hg19 fetalGeneAtlasDonor /gbdb/hg19/bbi/fetalGeneAtlas/donor.bb
 hgBbiDbLink hg19 fetalGeneAtlasAssay /gbdb/hg19/bbi/fetalGeneAtlas/Assay.bb
 hgBbiDbLink hg19 fetalGeneAtlasExperiment /gbdb/hg19/bbi/fetalGeneAtlas/Experiment_batch.bb
 hgBbiDbLink hg19 fetalGeneAtlasOrgan /gbdb/hg19/bbi/fetalGeneAtlas/Organ.bb
 hgBbiDbLink hg19 fetalGeneAtlasOrganCellLineage /gbdb/hg19/bbi/fetalGeneAtlas/Organ_cell_lineage.bb
 hgBbiDbLink hg19 fetalGeneAtlasRtGroup /gbdb/hg19/bbi/fetalGeneAtlas/RG_group.bb
 hgBbiDbLink hg19 fetalGeneAtlasSex /gbdb/hg19/bbi/fetalGeneAtlas/sex.bb
 
 # Add the bits from clust/*.ra and clust/*.colors to hg19/trackDb.ra and you should be good.
 foreach s (cell_type Assay Experiment_batch donor Organ Organ_cell_lineage RT_group sex)
     echo >> clust/$s.ra
 end
 cat clust/*.ra > tracks.ra
 
+#############################################################################
+# CADD, max Wed Feb 10 06:08:01 PST 2021
+cd /hive/data/genomes/hg19/bed/cadd/
+wget https://krishna.gs.washington.edu/download/CADD/v1.6/GRCh37/InDels.tsv.gz
+wget https://krishna.gs.washington.edu/download/CADD/v1.6/GRCh37/whole_genome_SNVs.tsv.gz
+time python ~/kent/src/hg/makeDb/cadd/caddToBed.py InDels.tsv.gz
+time python ~/kent/src/hg/makeDb/cadd/caddToWig.py
+wigToBigWig a.wig ../../chrom.sizes a.bw  &
+wigToBigWig c.wig ../../chrom.sizes c.bw  &
+wigToBigWig a.wig ../../chrom.sizes a.bw &
+wigToBigWig g.wig ../../chrom.sizes g.bw &
+bedToBigBed ins.bed ../../chrom.sizes ins.bb -type=bed9+ -tab -as=${HOME}/kent/src/hg/makeDb/cadd/cadd.as
+bedToBigBed del.bed ../../chrom.sizes del.bb -type=bed9+ -tab -as=${HOME}/kent/src/hg/makeDb/cadd/cadd.as
+rm -f *.wig *.bed