# VISTA Enhancers track refs #16044  (2023-09-20 Gerardo)
cd /hive/data/outside/
mkdir vistaEnhancers; cd vistaEnhancers
mkdir mm39; cd mm39
liftOver -bedPlus=9 /hive/data/outside/vistaEnhancers/mm9/sortedVistaEnhancers.bed /hive/data/gbdb/mm9/liftOver/mm9ToMm39.over.chain.gz vistaEnhancers.bed unMapped
bedToBigBed -tab -type=bed9+ -as=/hive/data/outside/vistaEnhancers/mm9/vistaEnhancers.as vistaEnhancers.bed https://hgdownload.soe.ucsc.edu/goldenPath/mm39/bigZips/mm39.chrom.sizes vistaEnhancers.bb
cd /gbdb/mm39
mkdir vistaEnhancers; cd vistaEnhancers
# Making symlink for big files
ln -s /hive/data/outside/vistaEnhancers/mm39/vistaEnhancers.bb
cd ~/kent/src/hg/makeDb/trackDb/mouse/mm39
vi trackDb.ra
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# VISTA Enhancers update 2025 #35531 (2025-04-30 Gerardo)

cd /hive/data/outside/otto/vista
wget -q  https://gitlab.com/egsb-mfgl/vista-data/-/raw/main/locus_ucsc_mm10.bed  -O vista.mm10.latest.bed

liftOver -tab  -bedPlus=9 vista.mm10.latest.bed /hive/data/gbdb/mm10/liftOver/mm10ToMm39.over.chain.gz vista.mm39.bed unMapped 
bedToBigBed -tab -sort -type=bed9+1 -as=vista.as vista.mm39.bed  https://hgdownload.soe.ucsc.edu/goldenPath/mm39/bigZips/mm39.chrom.sizes vista.mm39.bb

cd /gbdb/mm39/vistaEnhancers/
# Making symlink for bigBed files
ln -s /hive/data/outside/otto/vista/vista.mm39.bb vistaEnhancers.bb
cd ~/kent/src/hg/makeDb/trackDb/human/mm39
vi trackDb.ra
