## Beginning of track view track Amigo2_read_align superTrack on show shortLabel Amigo2 read align longLabel Amigo2 read align priority 2000 visibility full type bam configurable on ## Views track for RNAseq, junctions data track Amigo2ReadAlign parent Amigo2_read_align shortLabel Amigo2 read alignment visibility pack allButtonPair on centerLabelsDense on viewUi on doWiggle on pairEndsByName on showNames on bamColorMode off bamGrayMode aliQual indelDoubleInsert on indelQueryInsert on maxWindowToDraw 10000 # BAM track track ACD1_bam parent Amigo2ReadAlign bigDataUrl AC-D1.chrAmigo2Cre_masked_sorted.bam shortLabel AC-D1 bam longLabel AC-D1 bam type bam priority 2004 color 206,65,65 # BAM track track ACD2_bam parent Amigo2ReadAlign bigDataUrl AC-D2.chrAmigo2Cre_masked_sorted.bam shortLabel AC-D2 bam longLabel AC-D2 bam type bam priority 2004 color 206,65,65 # BAM track track ACH4_bam parent Amigo2ReadAlign bigDataUrl AC-H4.chrAmigo2Cre_masked_sorted.bam shortLabel AC-H4 bam longLabel AC-H4 bam type bam priority 2004 color 12,145,231 # BAM track track ACH5_bam parent Amigo2ReadAlign bigDataUrl AC-H5.chrAmigo2Cre_masked_sorted.bam shortLabel AC-H5 bam longLabel AC-H5 bam type bam priority 2004 color 12,145,231 # chrAmigo2Cre_pBACe36_Amigo2_Transgene.bb # gencode.vM27.annotation.bb track chrAmigo2Cre_features bigDataUrl chrAmigo2Cre_pBACe36_Amigo2_Transgene.bb shortLabel chrAmigo2Cre pBACe36_Amigo2_Transgene features longLabel chrAmigo2Cre pBACe36_Amigo2_Transgene features type bigBed group genes color 139,34,139 priority 510 track gencode.vM27.annotation bigDataUrl gencode.vM27.annotation.bb shortLabel Gencode vM27 with chrAmigo2Cre longLabel Gencode vM27 with chrAmigo2Cre type bigGenePred group genes color 39,64,139 priority 500 # #################################### ## track set track Amigo2_contig_cov superTrack on show shortLabel Amigo2_contig_cov longLabel Amigo2_contig_cov priority 1500 group coverage # ################################## # # Overlay multiple stranded tracks track Amigo2_contig_set superTrack Amigo2_contig_cov full container multiWig aggregate none shortLabel Amigo2_contig_set longLabel Amigo2_contig_set showSubtrackColorOnUi on type bigWig priority 1501 alwaysZero on graphTypeDefault bar maxHeightPixels 400:200:8 transformFunc NONE windowingFunction mean+whiskers gridDefault on autoScale on viewLimits 0:20 viewLimitsMax 0:2000 visibility full # ################################## track ACD12v2_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACD12v2_05jan2022_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 206,65,65 priority 1502 # ################################## track ACD12v3_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACD12v3_18jan2022_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 206,65,65 priority 1502 # ################################## track ACD1_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACD1_17dec2021_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 206,65,65 priority 1502 # ################################## track ACH45_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACH45_04jan2022_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 12,145,231 priority 1502 # ################################## track ACH45v2_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACH45v2_05jan2022_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 12,145,231 priority 1502 # ################################## track ACH45v3_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACH45v3_18jan2022_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 12,145,231 priority 1502 # ################################## track ACH4_contigs parent Amigo2_contig_set bigDataUrl alexander_megahit_ACH4_04jan2022_final.contigs.chrAmigo2Cre_masked.cigar.bw type bigWig color 12,145,231 priority 1502 #################################### ## track set track Amigo2_read_cov superTrack on show shortLabel Amigo2_read_cov longLabel Amigo2_read_cov priority 1000 group coverage # ################################## # # Overlay multiple stranded tracks track Amigo2_read_cov_set superTrack Amigo2_read_cov full container multiWig aggregate none shortLabel Amigo2_read_cov_set longLabel Amigo2_read_cov_set showSubtrackColorOnUi on type bigWig priority 1001 alwaysZero on graphTypeDefault bar maxHeightPixels 400:200:8 transformFunc NONE windowingFunction mean+whiskers gridDefault on autoScale on viewLimits 0:20 viewLimitsMax 0:2000 visibility full # ################################## track AC-D1_reads parent Amigo2_read_cov_set bigDataUrl AC-D1.chrAmigo2Cre_masked.regions.500.bw type bigWig color 206,65,65 priority 1002 # ################################## track AC-D2_reads parent Amigo2_read_cov_set bigDataUrl AC-D2.chrAmigo2Cre_masked.regions.500.bw type bigWig color 206,65,65 priority 1002 # ################################## track AC-H4_reads parent Amigo2_read_cov_set bigDataUrl AC-H4.chrAmigo2Cre_masked.regions.500.bw type bigWig color 12,145,231 priority 1002 # ################################## track AC-H5_reads parent Amigo2_read_cov_set bigDataUrl AC-H5.chrAmigo2Cre_masked.regions.500.bw type bigWig color 12,145,231 priority 1002