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The HiC data published by NG2019 seems miss the resolution at chr9. I check on the latest version with this https://github.com/broadinstitute/ABC-Enhancer-Gene-Prediction/blob/main/workflow/scripts/juicebox_dump.py or the old version with with branch NG2019 #Download hic matrix file from juicebox
python src/juicebox_dump.py \ --hic_file https://hicfiles.s3.amazonaws.com/hiseq/k562/in-situ/combined.hic \ --juicebox "java -jar juicer_tools.jar" \ --outdir example/input_data/HiC/raw/ \ --chromosomes 9
I manually check and found this command cause the error
java -jar /opt/juicer_tools.jar dump norm KR K562_combined.hic 9 BP 5000 hic/chr9/chr9.KRnorm
then I replace with 10k,15k, and the 25k is the smallest resolution that I can run with this.
The text was updated successfully, but these errors were encountered:
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The HiC data published by NG2019 seems miss the resolution at chr9.
I check on the latest version with this
https://github.com/broadinstitute/ABC-Enhancer-Gene-Prediction/blob/main/workflow/scripts/juicebox_dump.py
or the old version with with branch NG2019
#Download hic matrix file from juicebox
I manually check and found this command cause the error
then I replace with 10k,15k, and the 25k is the smallest resolution that I can run with this.
The text was updated successfully, but these errors were encountered: