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Centromics: visualing centromeres with multiple omics data

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Quick install and start

git clone --recurse-submodules https://github.com/zhangrengang/Centromics
cd Centromics

# install
conda env create -f Centromics.yaml
conda activate RepCent
./install.sh

# start
cd example_data
# long reads
centromics -l hifi.fq.gz -g ref.fa

# long reads + HiC data + ChIP data
centromics -l hifi.fq.gz -g ref.fa -pre hifi -chip chip.bam -hic merged_nodups.hic
centromics -l ont*.fq.gz -g ref.fa -pre ont  -chip chip.bam -hic merged_nodups.hic

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  • Python 99.4%
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