Mercurial > repos > melissacline > ucsc_cancer_utilities

diff seg2matrix/CGData/GenomicSegment.py @ 31:ab20c0d04f4a

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add seg2matrix tool
author jingchunzhu
date Fri, 24 Jul 2015 13:10:11 -0700
parents
children bf57076e27b9
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/seg2matrix/CGData/GenomicSegment.py	Fri Jul 24 13:10:11 2015 -0700
@@ -0,0 +1,32 @@
+
+import CGData
+import CGData.BaseTable
+
+class GenomicSegment(CGData.BaseTable.BaseTable):
+
+    __format__ = {
+            "name" : "genomicSegment",
+            "type" : "type",
+            "form" : "table",
+            "columnOrder" : [
+                "id",
+                "chrom",
+                "chrom_start",
+                "chrom_end",
+                "strand",
+                "value"
+            ],
+            "groupKey" : "id",
+            "columnDef" : {
+                "chrom_start" : { "type" : "int" },
+                "chrom_end" :   { "type" : "int" },
+                "value" : { "type" : "float" }
+            },
+            "links" : {
+                "assembly" : {},
+                "dataSubType" : {}
+            } 
+        }
+
+    def __init__(self):
+        CGData.BaseTable.BaseTable.__init__(self)