Parameter list for the current execution of FitHiChIP: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/B73-H3K27ac-Loop-HiChip-5000//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/B73-H3K27ac-Loop-HiChip-5000//HiCPro_Matrix_BinSize5000/L_20000_U2000000/FitHiChIP.cis.interactions.DistThr.bed
Number of interacting (non zero contacts) bin pairs ( all to all ) : 7666279Bin specific HiChIP coverage, coverage bias, and peak / non-peak boolean values: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/B73-H3K27ac-Loop-HiChip-5000//NormFeatures/Coverage_Bias/FitHiChIP.coverage_Bias.bed
All interactions with their FitHiChIP significance values: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/B73-H3K27ac-Loop-HiChip-5000//FitHiChIP_Peak2ALL_b5000_L20000_U2000000/P2PBckgr_0/Coverage_Bias/FitHiC_BiasCorr/FitHiChIP.interactions_FitHiC.bed
Number of interactions considered: 3603403Significant interactions: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/B73-H3K27ac-Loop-HiChip-5000//FitHiChIP_Peak2ALL_b5000_L20000_U2000000/P2PBckgr_0/Coverage_Bias/FitHiC_BiasCorr/FitHiChIP.interactions_FitHiC_Q0.01.bed
Total number of significant interactions ( FDR 0.01 ) : 68957After merging adjacent loops (connected component modeling) significant interactions: /home/springer/liang795/projects-in-nathan-lab/HiChip/2021-analysis/HiChip2021/B73-H3K27ac-Loop-HiChip-5000//FitHiChIP_Peak2ALL_b5000_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: 6059