hub h1_GM_loop_k27ac_k27me_atac_track shortLabel h1_GM_loop_k27ac_k27me_atac_track longLabel Example Hub for useOneFile option useOneFile on email yu.xiang@duke.edu genome hg38 ## track loop files track h1_hicar_5kb type bigInteract visibility full shortLabel h1_hicar longLabel h1_hicar #spectrum on maxHeightPixels 200:100:20 bigDataUrl h1_hicar_5k_sorted.bb track GM_hicar_5kb type bigInteract visibility full shortLabel GM_hicar longLabel GM_hicar #spectrum on maxHeightPixels 200:100:20 bigDataUrl gm_hicar_5k_sorted.bb track me_hicar_5kb type bigInteract visibility full shortLabel me_hicar longLabel me_hicar #spectrum on maxHeightPixels 200:100:20 bigDataUrl me_5k.bb track npc_hicar_5kb type bigInteract visibility full shortLabel npc_hicar longLabel npc_hicar #spectrum on maxHeightPixels 200:100:20 bigDataUrl npc_5k.bb ## atac track track h1_ATAC type bigWig bigDataUrl hicar_re1p.final.R2.macs2.bw viewLimits 0:1 smoothingWindow 2 shortLabel h1_ATAC longLabel h1_ATAC visibility full autoScale off alwaysZero On color 0,102,255 maxHeightPixels 100:20:8 windowingFunction maximum track npc_ATAC type bigWig bigDataUrl H1_NPC.macs2.bw viewLimits 0:1 smoothingWindow 2 shortLabel npc_ATAC longLabel npc_ATAC visibility full autoScale off alwaysZero On color 0,102,255 maxHeightPixels 100:20:8 windowingFunction maximum track me_ATAC type bigWig bigDataUrl H1_ME.macs2.bw viewLimits 0:1 smoothingWindow 2 shortLabel me_ATAC longLabel me_ATAC visibility full autoScale off alwaysZero On color 0,102,255 maxHeightPixels 100:20:8 windowingFunction maximum track GM12878_ATAC type bigWig bigDataUrl GM12878.macs2.bw viewLimits 0:1 smoothingWindow 2 shortLabel GM12878_ATAC longLabel GM12878_ATAC visibility full autoScale off alwaysZero On color 0,102,255 maxHeightPixels 100:20:8 windowingFunction maximum # previouse GM atac track #https://www.encodeproject.org/files/ENCFF603BJO/@@download/ENCFF603BJO.bigWig ## histone marker track track GM_H3K27ac-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF469WVA/@@download/ENCFF469WVA.bigWig shortLabel GM_H3K27ac longLabel GM_H3K27ac visibility full autoScale off alwaysZero On color 255,153,51 maxHeightPixels 100:20:8 windowingFunction maximum track GM_H3K27me3-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF486WAD/@@download/ENCFF486WAD.bigWig shortLabel GM_H3K27me3 longLabel GM_H3K27me3 visibility full autoScale off alwaysZero On color 153,51,255 maxHeightPixels 100:20:8 windowingFunction maximum track h1_H3K27ac-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF986PCY/@@download/ENCFF986PCY.bigWig shortLabel h1_H3K27ac longLabel h1_H3K27ac visibility full autoScale off alwaysZero On color 255,153,51 maxHeightPixels 100:20:8 windowingFunction maximum track h1_H3K27me3-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF671NVD/@@download/ENCFF671NVD.bigWig shortLabel h1_H3K27me3 longLabel h1_H3K27me3 visibility full autoScale off alwaysZero On color 153,51,255 maxHeightPixels 100:20:8 windowingFunction maximum # me track me_H3K27ac-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF052XMR/@@download/ENCFF052XMR.bigWig shortLabel me_H3K27ac longLabel me_H3K27ac visibility full autoScale off alwaysZero On color 255,153,51 maxHeightPixels 100:20:8 windowingFunction maximum track me_H3K27me3-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF277KTD/@@download/ENCFF277KTD.bigWig shortLabel me_H3K27me3 longLabel me_H3K27me3 visibility full autoScale off alwaysZero On color 153,51,255 maxHeightPixels 100:20:8 windowingFunction maximum # npc track npc_H3K27ac-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF110SOE/@@download/ENCFF110SOE.bigWig shortLabel npc_H3K27ac longLabel npc_H3K27ac visibility full autoScale off alwaysZero On color 255,153,51 maxHeightPixels 100:20:8 windowingFunction maximum track npc_H3K27me3-human type bigWig smoothingWindow 2 viewLimits 0:15 bigDataUrl https://www.encodeproject.org/files/ENCFF346TBB/@@download/ENCFF346TBB.bigWig shortLabel npc_H3K27me3 longLabel npc_H3K27me3 visibility full autoScale off alwaysZero On color 153,51,255 maxHeightPixels 100:20:8 windowingFunction maximum ## RNA track for four samples track GM12878_RNA viewLimits 0:10 bigDataUrl https://www.encodeproject.org/files/ENCFF668GHD/@@download/ENCFF668GHD.bigWig shortLabel GM12878_RNA longLabel GM12878_RNA type bigWig color 230,0,0 visibility full maxHeightPixels 100:20:8 autoScale off windowingFunction maximum configurable on track H1_RNA viewLimits 0:10 bigDataUrl H1_RNA.bigWig shortLabel H1_RNA longLabel H1_RNA type bigWig color 230,0,0 visibility full maxHeightPixels 100:20:8 autoScale off windowingFunction maximum configurable on track mesendoderm_RNA viewLimits 0:10 bigDataUrl mesendoderm_RNA.bigWig shortLabel mesendoderm_RNA longLabel mesendoderm_RNA type bigWig color 230,0,0 visibility full maxHeightPixels 100:20:8 autoScale off windowingFunction maximum configurable on track npc_RNA viewLimits 0:10 bigDataUrl npc_RNA.bigWig shortLabel npc_RNA longLabel npc_RNA type bigWig color 230,0,0 visibility full maxHeightPixels 100:20:8 autoScale off windowingFunction maximum configurable on ## add the v4c coverage fro k27me to k27ac coverage tracks ## add GATA6 v4c track GM_FOXC2_ME_peak_137470 bigDataUrl GM_FOXC2_ME_peak_137470.bw shortLabel GM_FOXC2_ME_peak_137470 longLabel GM_FOXC2_ME_peak_137470 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_FOXC2_NPC_peak_75172 bigDataUrl GM_FOXC2_NPC_peak_75172.bw shortLabel GM_FOXC2_NPC_peak_75172 longLabel GM_FOXC2_NPC_peak_75172 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_GATA6_H1_peak_75590 bigDataUrl GM_GATA6_H1_peak_75590.bw shortLabel GM_GATA6_H1_peak_75590 longLabel GM_GATA6_H1_peak_75590 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_LHX5_H1_peak_58939 bigDataUrl GM_LHX5_H1_peak_58939.bw shortLabel GM_LHX5_H1_peak_58939 longLabel GM_LHX5_H1_peak_58939 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_PAX6_H1_peak_51823 bigDataUrl GM_PAX6_H1_peak_51823.bw shortLabel GM_PAX6_H1_peak_51823 longLabel GM_PAX6_H1_peak_51823 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_POU3F2_NPC_peak_35734 bigDataUrl GM_POU3F2_NPC_peak_35734.bw shortLabel GM_POU3F2_NPC_peak_35734 longLabel GM_POU3F2_NPC_peak_35734 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_SIX2_H1_peak_9578 bigDataUrl GM_SIX2_H1_peak_9578.bw shortLabel GM_SIX2_H1_peak_9578 longLabel GM_SIX2_H1_peak_9578 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_SIX2_NPC_peak_9703 bigDataUrl GM_SIX2_NPC_peak_9703.bw shortLabel GM_SIX2_NPC_peak_9703 longLabel GM_SIX2_NPC_peak_9703 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_SIX3_H1_peak_9571 bigDataUrl GM_SIX3_H1_peak_9571.bw shortLabel GM_SIX3_H1_peak_9571 longLabel GM_SIX3_H1_peak_9571 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track GM_TBX5_ME_peak_116354 bigDataUrl GM_TBX5_ME_peak_116354.bw shortLabel GM_TBX5_ME_peak_116354 longLabel GM_TBX5_ME_peak_116354 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_FOXC2_ME_peak_137470 bigDataUrl H1_FOXC2_ME_peak_137470.bw shortLabel H1_FOXC2_ME_peak_137470 longLabel H1_FOXC2_ME_peak_137470 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_FOXC2_NPC_peak_75172 bigDataUrl H1_FOXC2_NPC_peak_75172.bw shortLabel H1_FOXC2_NPC_peak_75172 longLabel H1_FOXC2_NPC_peak_75172 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_GATA6_H1_peak_75590 bigDataUrl H1_GATA6_H1_peak_75590.bw shortLabel H1_GATA6_H1_peak_75590 longLabel H1_GATA6_H1_peak_75590 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_LHX5_H1_peak_58939 bigDataUrl H1_LHX5_H1_peak_58939.bw shortLabel H1_LHX5_H1_peak_58939 longLabel H1_LHX5_H1_peak_58939 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_PAX6_H1_peak_51823 bigDataUrl H1_PAX6_H1_peak_51823.bw shortLabel H1_PAX6_H1_peak_51823 longLabel H1_PAX6_H1_peak_51823 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_POU3F2_NPC_peak_35734 bigDataUrl H1_POU3F2_NPC_peak_35734.bw shortLabel H1_POU3F2_NPC_peak_35734 longLabel H1_POU3F2_NPC_peak_35734 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_SIX2_H1_peak_9578 bigDataUrl H1_SIX2_H1_peak_9578.bw shortLabel H1_SIX2_H1_peak_9578 longLabel H1_SIX2_H1_peak_9578 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_SIX2_NPC_peak_9703 bigDataUrl H1_SIX2_NPC_peak_9703.bw shortLabel H1_SIX2_NPC_peak_9703 longLabel H1_SIX2_NPC_peak_9703 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_SIX3_H1_peak_9571 bigDataUrl H1_SIX3_H1_peak_9571.bw shortLabel H1_SIX3_H1_peak_9571 longLabel H1_SIX3_H1_peak_9571 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track H1_TBX5_ME_peak_116354 bigDataUrl H1_TBX5_ME_peak_116354.bw shortLabel H1_TBX5_ME_peak_116354 longLabel H1_TBX5_ME_peak_116354 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_FOXC2_ME_peak_137470 bigDataUrl ME_FOXC2_ME_peak_137470.bw shortLabel ME_FOXC2_ME_peak_137470 longLabel ME_FOXC2_ME_peak_137470 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_FOXC2_NPC_peak_75172 bigDataUrl ME_FOXC2_NPC_peak_75172.bw shortLabel ME_FOXC2_NPC_peak_75172 longLabel ME_FOXC2_NPC_peak_75172 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_GATA6_H1_peak_75590 bigDataUrl ME_GATA6_H1_peak_75590.bw shortLabel ME_GATA6_H1_peak_75590 longLabel ME_GATA6_H1_peak_75590 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_LHX5_H1_peak_58939 bigDataUrl ME_LHX5_H1_peak_58939.bw shortLabel ME_LHX5_H1_peak_58939 longLabel ME_LHX5_H1_peak_58939 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_PAX6_H1_peak_51823 bigDataUrl ME_PAX6_H1_peak_51823.bw shortLabel ME_PAX6_H1_peak_51823 longLabel ME_PAX6_H1_peak_51823 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_POU3F2_NPC_peak_35734 bigDataUrl ME_POU3F2_NPC_peak_35734.bw shortLabel ME_POU3F2_NPC_peak_35734 longLabel ME_POU3F2_NPC_peak_35734 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_SIX2_H1_peak_9578 bigDataUrl ME_SIX2_H1_peak_9578.bw shortLabel ME_SIX2_H1_peak_9578 longLabel ME_SIX2_H1_peak_9578 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_SIX2_NPC_peak_9703 bigDataUrl ME_SIX2_NPC_peak_9703.bw shortLabel ME_SIX2_NPC_peak_9703 longLabel ME_SIX2_NPC_peak_9703 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_SIX3_H1_peak_9571 bigDataUrl ME_SIX3_H1_peak_9571.bw shortLabel ME_SIX3_H1_peak_9571 longLabel ME_SIX3_H1_peak_9571 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track ME_TBX5_ME_peak_116354 bigDataUrl ME_TBX5_ME_peak_116354.bw shortLabel ME_TBX5_ME_peak_116354 longLabel ME_TBX5_ME_peak_116354 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_FOXC2_ME_peak_137470 bigDataUrl NPC_FOXC2_ME_peak_137470.bw shortLabel NPC_FOXC2_ME_peak_137470 longLabel NPC_FOXC2_ME_peak_137470 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_FOXC2_NPC_peak_75172 bigDataUrl NPC_FOXC2_NPC_peak_75172.bw shortLabel NPC_FOXC2_NPC_peak_75172 longLabel NPC_FOXC2_NPC_peak_75172 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_GATA6_H1_peak_75590 bigDataUrl NPC_GATA6_H1_peak_75590.bw shortLabel NPC_GATA6_H1_peak_75590 longLabel NPC_GATA6_H1_peak_75590 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_LHX5_H1_peak_58939 bigDataUrl NPC_LHX5_H1_peak_58939.bw shortLabel NPC_LHX5_H1_peak_58939 longLabel NPC_LHX5_H1_peak_58939 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_PAX6_H1_peak_51823 bigDataUrl NPC_PAX6_H1_peak_51823.bw shortLabel NPC_PAX6_H1_peak_51823 longLabel NPC_PAX6_H1_peak_51823 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_POU3F2_NPC_peak_35734 bigDataUrl NPC_POU3F2_NPC_peak_35734.bw shortLabel NPC_POU3F2_NPC_peak_35734 longLabel NPC_POU3F2_NPC_peak_35734 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_SIX2_H1_peak_9578 bigDataUrl NPC_SIX2_H1_peak_9578.bw shortLabel NPC_SIX2_H1_peak_9578 longLabel NPC_SIX2_H1_peak_9578 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_SIX2_NPC_peak_9703 bigDataUrl NPC_SIX2_NPC_peak_9703.bw shortLabel NPC_SIX2_NPC_peak_9703 longLabel NPC_SIX2_NPC_peak_9703 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_SIX3_H1_peak_9571 bigDataUrl NPC_SIX3_H1_peak_9571.bw shortLabel NPC_SIX3_H1_peak_9571 longLabel NPC_SIX3_H1_peak_9571 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on track NPC_TBX5_ME_peak_116354 bigDataUrl NPC_TBX5_ME_peak_116354.bw shortLabel NPC_TBX5_ME_peak_116354 longLabel NPC_TBX5_ME_peak_116354 type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on