quickload/H_sapiens_Dec_2013/annots.xml

<files>
  <file name="H_sapiens_Dec_2013_ncbiRefSeqCurated.bed.gz"
        title="RefSeq Curated"
        description="Data from UCSC Table Browser - RefSeq Curated (ncbiRefSeqCurated) table - updated Sep 23, 2020"
        url="H_sapiens_Dec_2013/"
        foreground="000000"
        name_size="14"
        direction_type="arrow"
        label_field="title"
        background="FFFFFF"
        load_hint="Whole Sequence"
        show2tracks="true"
   />
  <file name="chess3.0.GRCh38.p12.bed.gz"
        title="CHESS gene models v.3.0"
        description="Based on nearly 10,000 GTEx project RNA-Seq experiments re-formatted for IGB from chess3.0.gff.gz"
        url="https://github.com/chess-genome/chess"
        direction_type="arrow"
        name_size="14"
        label_field="id"
        background="FFFFFF"
        foreground="000000"
        show2tracks="true"
   />
  <file name="H_sapiens_Dec_2013_snp153Common.bed.gz"
        title="Genetics/Common SNPs (153)"
        description="Data from UCSC Table Browser - common SNPs (snp153Common table) - updated Sep 30, 2020"
        url="H_sapiens_Dec_2013"
        direction_type="none"
        name_size="14"
        label_field="id"
        background="FFFFFF"
        foreground="1B4C9B"
        show2tracks="false"
   />
  <file name="H_sapiens_Dec_2013_all_est.psl.gz"
        title="UCSC Tracks/mRNA and EST/All human EST"
        description="Data from UCSC Table Browser - human EST alignments (all_est table) - updated Sep 30, 2020"
        url="H_sapiens_Dec_2013"
        direction_type="arrow"
        max_depth="10"
        name_size="16"
        background="FFFFFF"
        foreground="B71725"
        label_field="id"
        show2tracks="true"
   />
    <file name="H_sapiens_Dec_2013_all_mrna.psl.gz"
         title="UCSC Tracks/mRNA and EST/Human mRNAs"
         description="Data from UCSC Table Browser - human mRNA alignments (all_mrna table) - updated Sep 30, 2020"
         url="H_sapiens_Dec_2013"
         direction_type="arrow"
         max_depth="10"
         name_size="16"
         background="FFFFFF"
         foreground="B71725"
         label_field="id"
         show2tracks="true"
    />
    <file name="hg38-blacklist.v2.bed.gz" 
        title="ENCODE blacklist" 
        description="ENCODE-identified problematic regions of the genome (hg38-blacklist.v2.bed.gz)" 
        url="https://github.com/Boyle-Lab/Blacklist"
        direction_type="none"
        name_size="12"
        background="FFFFFF"
        foreground="000000"
        label_field="name"
        show2tracks="false"
    />
   <file name="UCSCTracks/Assembly.bed.gz"
        title="UCSC Tracks/Mapping and Sequencing/Assembly"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="UCSCTracks/Hg19_Diff.bed.gz"
        title="UCSC Tracks/Mapping and Sequencing/Hg19 Diff"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="UCSCTracks/GENCODE.bed.gz"
        title="UCSC Tracks/Genes and Gene Predictions/GENCODE"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="H_sapiens_Dec_2013_ncbiRefSeq.bed.gz"
         title="UCSC Tracks/Genes and Gene Predictions/RefSeq All"
         description="Data from UCSC Table Browser - RefSeq All (ncbiRefSeq table) - updated Sep 23, 2020"
         url="H_sapiens_Dec_2013"
         foreground="B71725"
         name_size="14"
         direction_type="arrow"
         label_field="title"
         background="FFFFFF"
         show2tracks="true"
   />
   <file name="H_sapiens_Dec_2013_refGene.bed.gz"
        title="UCSC Tracks/Genes and Gene Predictions/RefGene (old)"
        description="Data from UCSC Genome Browser - RefGene track, updated Sep 30, 2020"
        foreground="000000"
        name_size="14"
        direction_type="arrow"
        label_field="title"
        background="FFFFFF"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="UCSCTracks/RetroGenes_V9.bed.gz"
        title="UCSC Tracks/Genes and Gene Predictions/RetroGenes V9"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="UCSCTracks/CpG_Islands.bed.gz"
        title="UCSC Tracks/Regulation/CpG Islands"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="UCSCTracks/RepeatMasker.bed.gz"
        title="UCSC Tracks/Repeats/RepeatMasker"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="UCSCTracks/RepeatMasker_Viz.bed.gz"
        title="UCSC Tracks/Repeats/RepeatMasker Viz"
        url="H_sapiens_Dec_2013/UCSCTracks/"
   />
   <file name="cytoBand.cyt"
         title="Cytobands"
         load_hint="Whole Sequence"
   />
</files>
1	aloraine	9	<files>
2	aloraine	96	<file name="H_sapiens_Dec_2013_ncbiRefSeqCurated.bed.gz"
3			title="RefSeq Curated"
4	nfreese	131	description="Data from UCSC Table Browser - RefSeq Curated (ncbiRefSeqCurated) table - updated Sep 23, 2020"
5	aloraine	9	url="H_sapiens_Dec_2013/"
6			foreground="000000"
7			name_size="14"
8			direction_type="arrow"
9			label_field="title"
10			background="FFFFFF"
11			load_hint="Whole Sequence"
12	aloraine	96	show2tracks="true"
13	aloraine	170	/>
14			<file name="chess3.0.GRCh38.p12.bed.gz"
15			title="CHESS gene models v.3.0"
16			description="Based on nearly 10,000 GTEx project RNA-Seq experiments re-formatted for IGB from chess3.0.gff.gz"
17			url="https://github.com/chess-genome/chess"
18			direction_type="arrow"
19			name_size="14"
20			label_field="id"
21			background="FFFFFF"
22			foreground="000000"
23			show2tracks="true"
24			/>
25	nfreese	131	<file name="H_sapiens_Dec_2013_snp153Common.bed.gz"
26			title="Genetics/Common SNPs (153)"
27			description="Data from UCSC Table Browser - common SNPs (snp153Common table) - updated Sep 30, 2020"
28	aloraine	96	url="H_sapiens_Dec_2013"
29	aloraine	100	direction_type="none"
30	aloraine	96	name_size="14"
31			label_field="id"
32	aloraine	9	background="FFFFFF"
33	aloraine	100	foreground="1B4C9B"
34	aloraine	96	show2tracks="false"
35			/>
36	aloraine	9	<file name="H_sapiens_Dec_2013_all_est.psl.gz"
37	aloraine	96	title="UCSC Tracks/mRNA and EST/All human EST"
38	nfreese	131	description="Data from UCSC Table Browser - human EST alignments (all_est table) - updated Sep 30, 2020"
39	aloraine	96	url="H_sapiens_Dec_2013"
40	aloraine	9	direction_type="arrow"
41			max_depth="10"
42			name_size="16"
43			background="FFFFFF"
44			foreground="B71725"
45			label_field="id"
46	aloraine	96	show2tracks="true"
47			/>
48			<file name="H_sapiens_Dec_2013_all_mrna.psl.gz"
49			title="UCSC Tracks/mRNA and EST/Human mRNAs"
50	nfreese	131	description="Data from UCSC Table Browser - human mRNA alignments (all_mrna table) - updated Sep 30, 2020"
51	aloraine	96	url="H_sapiens_Dec_2013"
52			direction_type="arrow"
53			max_depth="10"
54			name_size="16"
55			background="FFFFFF"
56			foreground="B71725"
57			label_field="id"
58			show2tracks="true"
59			/>
60	nfreese	158	<file name="hg38-blacklist.v2.bed.gz"
61			title="ENCODE blacklist"
62			description="ENCODE-identified problematic regions of the genome (hg38-blacklist.v2.bed.gz)"
63			url="https://github.com/Boyle-Lab/Blacklist"
64			direction_type="none"
65			name_size="12"
66			background="FFFFFF"
67			foreground="000000"
68			label_field="name"
69			show2tracks="false"
70			/>
71	aloraine	9	<file name="UCSCTracks/Assembly.bed.gz"
72	aloraine	96	title="UCSC Tracks/Mapping and Sequencing/Assembly"
73	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
74	aloraine	9	/>
75			<file name="UCSCTracks/Hg19_Diff.bed.gz"
76	aloraine	96	title="UCSC Tracks/Mapping and Sequencing/Hg19 Diff"
77	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
78	aloraine	9	/>
79			<file name="UCSCTracks/GENCODE.bed.gz"
80	aloraine	96	title="UCSC Tracks/Genes and Gene Predictions/GENCODE"
81	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
82	aloraine	9	/>
83	aloraine	99	<file name="H_sapiens_Dec_2013_ncbiRefSeq.bed.gz"
84			title="UCSC Tracks/Genes and Gene Predictions/RefSeq All"
85	nfreese	131	description="Data from UCSC Table Browser - RefSeq All (ncbiRefSeq table) - updated Sep 23, 2020"
86	aloraine	99	url="H_sapiens_Dec_2013"
87			foreground="B71725"
88			name_size="14"
89			direction_type="arrow"
90			label_field="title"
91			background="FFFFFF"
92			show2tracks="true"
93			/>
94	aloraine	96	<file name="H_sapiens_Dec_2013_refGene.bed.gz"
95	aloraine	98	title="UCSC Tracks/Genes and Gene Predictions/RefGene (old)"
96	nfreese	131	description="Data from UCSC Genome Browser - RefGene track, updated Sep 30, 2020"
97	aloraine	98	foreground="000000"
98			name_size="14"
99			direction_type="arrow"
100			label_field="title"
101			background="FFFFFF"
102	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
103	aloraine	96	/>
104	aloraine	9	<file name="UCSCTracks/RetroGenes_V9.bed.gz"
105	aloraine	96	title="UCSC Tracks/Genes and Gene Predictions/RetroGenes V9"
106	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
107	aloraine	9	/>
108			<file name="UCSCTracks/CpG_Islands.bed.gz"
109	aloraine	96	title="UCSC Tracks/Regulation/CpG Islands"
110	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
111	aloraine	9	/>
112			<file name="UCSCTracks/RepeatMasker.bed.gz"
113	aloraine	96	title="UCSC Tracks/Repeats/RepeatMasker"
114	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
115	aloraine	9	/>
116			<file name="UCSCTracks/RepeatMasker_Viz.bed.gz"
117	aloraine	96	title="UCSC Tracks/Repeats/RepeatMasker Viz"
118	aloraine	106	url="H_sapiens_Dec_2013/UCSCTracks/"
119	aloraine	9	/>
120	aloraine	96	<file name="cytoBand.cyt"
121			title="Cytobands"
122			load_hint="Whole Sequence"
123			/>
124	aloraine	9	</files>