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makehicmatrix.sh
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makehicmatrix.sh
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# written by Matt Jones, contact m.jones.18@warwick.ac.uk
bedpe2Matrix --binsize 1000 --chrsizes hg19.chrom.sizes --ifile rep_1_SRR372747_hg19/out.rmdup.bedpe --oprefix rep_1_SRR372747_hg19/rep_1_SRR372747_hg19_hic_matrix_res_1000 --progress
bedpe2Matrix --binsize 7000 --chrsizes hg19.chrom.sizes --ifile rep_1_SRR372747_hg19/out.rmdup.bedpe --oprefix rep_1_SRR372747_hg19/rep_1_SRR372747_hg19_hic_matrix_res_7000 --progress
bedpe2Matrix --binsize 2000 --chrsizes hg19.chrom.sizes --ifile rep_1_SRR372747_hg19/out.rmdup.bedpe --oprefix rep_1_SRR372747_hg19/rep_1_SRR372747_hg19_hic_matrix_res_2000 --progress
bedpe2Matrix --binsize 1000 --chrsizes hg19.chrom.sizes --ifile rep_2_SRR372748_hg19/out.rmdup.bedpe --oprefix rep_2_SRR372748_hg19/rep_2_SRR372748_hg19_hic_matrix_res_1000 --progress
bedpe2Matrix --binsize 7000 --chrsizes hg19.chrom.sizes --ifile rep_2_SRR372748_hg19/out.rmdup.bedpe --oprefix rep_2_SRR372748_hg19/rep_2_SRR372748_hg19_hic_matrix_res_7000 --progress
bedpe2Matrix --binsize 2000 --chrsizes hg19.chrom.sizes --ifile rep_2_SRR372748_hg19/out.rmdup.bedpe --oprefix rep_2_SRR372748_hg19/rep_2_SRR372748_hg19_hic_matrix_res_2000 --progress