18bdb7e650b738210115316787b9691f4d4c6969
max
  Fri Jul 4 05:21:50 2025 -0700
adding bionano tracks to hg19 and hg38, refs #36033

diff --git src/hg/makeDb/doc/hg19.txt src/hg/makeDb/doc/hg19.txt
index 32e07f5b6f7..10af3b431aa 100644
--- src/hg/makeDb/doc/hg19.txt
+++ src/hg/makeDb/doc/hg19.txt
@@ -34315,30 +34315,34 @@
 --
 
 The following files from Roche had long entries in col4, causing these files to have rows that were too long for bedToBigBed. Therefore, all the input bed files had col4 cut. (Note: these were just the ensembl and ccds ids, which did not provide any other substantial information.)
 
 We ran the command
 
 > cut -f1,2,3
 
 for all such files. Here's an example for the Roche - KAPA HyperExome Capture Probe:
 
 Footprint file:
 
 cut -f1,2,3 sorted-KAPA_HyperExome_hg19_capture_targets.bed > sorted-cut-KAPA_HyperExome_hg19_capture_targets.bed
 
 
+# Bionano, max, July 4 2025
+# received files from apang@bionano.com
+# converted to bigBed with standard bedToBigBed
+
 #############################################################################
 # haploinsufficiency from DECIPHER - DONE 3/18/2021 Jonathan
 
 # Download latest predictions list from https://decipher.sanger.ac.uk/about/downloads/data
 mkdir -p /hive/data/outside/decipher/haploinsufficiency
 cd /hive/data/outside/decipher/haploinsufficiency
 wget https://decipher.sanger.ac.uk/files/downloads/HI_Predictions_Version3.bed.gz
 filePath=`pwd`/HI_Predictions_Version3.bed.gz
 
 # zcat | head shows the file is nearly ready to go, but could benefit from a bit of reorganization
 # (also floating point score values don't work for some bed processors)
 
 mkdir -p /hive/data/genomes/hg19/bed/decipherHaplo
 cd /hive/data/genomes/hg19/bed/decipherHaplo