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_TBX3_atac_peaks_v4c bigDataUrl GM_TBX3_atac_peaks_v4c.bw shortLabel GM_TBX3_atac_peaks_v4c longLabel GM_TBX3_atac_peaks_v4c 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_TBX3_atac_peaks_v4c bigDataUrl H1_TBX3_atac_peaks_v4c.bw shortLabel H1_TBX3_atac_peaks_v4c longLabel H1_TBX3_atac_peaks_v4c 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_TBX3_atac_peaks_v4c bigDataUrl ME_TBX3_atac_peaks_v4c.bw shortLabel ME_TBX3_atac_peaks_v4c longLabel ME_TBX3_atac_peaks_v4c 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_TBX3_atac_peaks_v4c bigDataUrl NPC_TBX3_atac_peaks_v4c.bw shortLabel NPC_TBX3_atac_peaks_v4c longLabel NPC_TBX3_atac_peaks_v4c type bigWig color 0,153,51 visibility full maxHeightPixels 100:65:8 autoScale off viewLimits 0:10 windowingFunction maximum smoothingWindow 2 configurable on