#new
#setSleepInterval 200

# change this path to point to your files:
#load /Users/asm_work/HT-Seq/igv/data/igv_HCC1143_attributes.txt,/Users/asm_work/HT-Seq/igv/data/HCC1143.normal.21.19M-20M.bam

snapshotDirectory ~/Downloads/


# Example1:
goto chr21:19479237-19479814
sort strand
maxPanelHeight 50000
snapshot HCC1143_exercise1_SNV_SNP_pair.png

# Example2:
goto chr21:19,518,412-19,518,497
sort strand
snapshot HCC1143_exercise2_homopolymerRepeat.png

# Ecample3:
goto chr21:19,611,925-19,631,555
collapse
snapshot HCC1143_exercise3_lowGC.png

# Example4:
goto chr21:19,666,833-19,667,007
expand
sort base
snapshot HCC1143_exercise4_hetSNP_allelic.png

# Example5:
goto chr21:19,800,320-19,818,162
collapse
snapshot HCC1143_exercise5_LINErepeat.png

# Example6:
goto chr21:19,324,469-19,331,468
expand
viewaspairs
snapshot HCC1143_exercise6_homDEL.png

# Example7:
goto chr21:19,102,154-19,103,108
snapshot HCC1143_exercise7_AluY.png

# Example8:
goto chr21:19,089,694-19,095,362
snapshot HCC1143_exercise8_translocation.png

# exit