Mercurial > repos > melissacline > ucsc_cancer_utilities

annotate seg2matrix/CGData/GenomicSegment.py @ 58:3e5680fecd7a

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accept chr1 and 1
author jingchunzhu
date Tue, 22 Sep 2015 15:16:19 -0700
parents ab20c0d04f4a
children bf57076e27b9
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31
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1
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2 import CGData
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3 import CGData.BaseTable
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4
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5 class GenomicSegment(CGData.BaseTable.BaseTable):
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6
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7 __format__ = {
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8 "name" : "genomicSegment",
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9 "type" : "type",
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10 "form" : "table",
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11 "columnOrder" : [
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12 "id",
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13 "chrom",
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14 "chrom_start",
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15 "chrom_end",
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16 "strand",
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17 "value"
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18 ],
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19 "groupKey" : "id",
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20 "columnDef" : {
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21 "chrom_start" : { "type" : "int" },
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22 "chrom_end" : { "type" : "int" },
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23 "value" : { "type" : "float" }
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24 },
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25 "links" : {
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26 "assembly" : {},
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27 "dataSubType" : {}
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28 }
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29 }
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30
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31 def __init__(self):
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32 CGData.BaseTable.BaseTable.__init__(self)