FitHiChIP summary Report

Parameter list for the current execution of FitHiChIP: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/Mo17-H3K4me3-Loop-Chip-1000//Parameters.txt

List of CIS interactions within the specified distance thresholds (lower threshold: 20000 upper threshold: 2000000 ): /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/Mo17-H3K4me3-Loop-Chip-1000//HiCPro_Matrix_BinSize1000/L_20000_U2000000/FitHiChIP.cis.interactions.DistThr.bed

Number of interacting (non zero contacts) bin pairs ( all to all ) : 14341918

Bin specific HiChIP coverage, coverage bias, and peak / non-peak boolean values: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/Mo17-H3K4me3-Loop-Chip-1000//NormFeatures/Coverage_Bias/FitHiChIP.coverage_Bias.bed

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Statistics for peak to ALL (both peak and non-peak) loops

FitHiChIP background (0 means loose, 1 means stringent ) : 0

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Statistics for Coverage bias regression

All interactions with their FitHiChIP significance values: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/Mo17-H3K4me3-Loop-Chip-1000//FitHiChIP_Peak2ALL_b1000_L20000_U2000000/P2PBckgr_0/Coverage_Bias/FitHiC_BiasCorr/FitHiChIP.interactions_FitHiC.bed

Number of interactions considered: 5704688

Significant interactions: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/Mo17-H3K4me3-Loop-Chip-1000//FitHiChIP_Peak2ALL_b1000_L20000_U2000000/P2PBckgr_0/Coverage_Bias/FitHiC_BiasCorr/FitHiChIP.interactions_FitHiC_Q0.01.bed

Total number of significant interactions ( FDR 0.01 ) : 2195

After merging adjacent loops (connected component modeling) significant interactions: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/Mo17-H3K4me3-Loop-Chip-1000//FitHiChIP_Peak2ALL_b1000_L20000_U2000000/P2PBckgr_0/Coverage_Bias/FitHiC_BiasCorr/Merge_Nearby_Interactions/FitHiChIP.interactions_FitHiC_Q0.01_MergeNearContacts.bed

Total number of significant interactions ( FDR 0.01 ) after merging adjacent loops: 287

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Statistics for peak to ALL (both peak and non-peak) loops

FitHiChIP background (0 means loose, 1 means stringent ) : 1

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