diff Galaxy-Workflow-Differential_Methylation_Bismark.ga @ 13:4eeda563e6c1 draft

Uploaded
author fcaramia
date Tue, 08 Jan 2013 18:51:48 -0500
parents
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Galaxy-Workflow-Differential_Methylation_Bismark.ga	Tue Jan 08 18:51:48 2013 -0500
@@ -0,0 +1,229 @@
+{
+    "a_galaxy_workflow": "true", 
+    "annotation": "Compare Methylation levels of 2 samples", 
+    "format-version": "0.1", 
+    "name": "Differential_Methylation_Bismark", 
+    "steps": {
+        "0": {
+            "annotation": "", 
+            "id": 0, 
+            "input_connections": {}, 
+            "inputs": [], 
+            "name": "Bismark", 
+            "outputs": [
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+                    "name": "summary", 
+                    "type": "txt"
+                }, 
+                {
+                    "name": "output", 
+                    "type": "bam"
+                }
+            ], 
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+                "top": 200
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+            "post_job_actions": {}, 
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+            "tool_version": "0.7.6", 
+            "type": "tool", 
+            "user_outputs": []
+        }, 
+        "1": {
+            "annotation": "", 
+            "id": 1, 
+            "input_connections": {}, 
+            "inputs": [], 
+            "name": "Bismark", 
+            "outputs": [
+                {
+                    "name": "summary", 
+                    "type": "txt"
+                }, 
+                {
+                    "name": "output", 
+                    "type": "bam"
+                }
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+            "tool_version": "0.7.6", 
+            "type": "tool", 
+            "user_outputs": []
+        }, 
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+            "id": 2, 
+            "input_connections": {
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+                    "id": 0, 
+                    "output_name": "output"
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+            }, 
+            "inputs": [], 
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+            "outputs": [
+                {
+                    "name": "output", 
+                    "type": "bedgraph"
+                }, 
+                {
+                    "name": "summary", 
+                    "type": "txt"
+                }
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+                    "output_name": "output"
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+            }, 
+            "inputs": [], 
+            "name": "Methylation Extractor", 
+            "outputs": [
+                {
+                    "name": "output", 
+                    "type": "bedgraph"
+                }, 
+                {
+                    "name": "summary", 
+                    "type": "txt"
+                }
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+            "position": {
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+                "top": 394
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+            "post_job_actions": {}, 
+            "tool_errors": null, 
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+            "type": "tool", 
+            "user_outputs": []
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+            "input_connections": {
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+                    "output_name": "output"
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+            }, 
+            "inputs": [], 
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+            "outputs": [
+                {
+                    "name": "output", 
+                    "type": "tabular"
+                }, 
+                {
+                    "name": "summary", 
+                    "type": "txt"
+                }
+            ], 
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+                "top": 221
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+            "post_job_actions": {}, 
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+            "tool_version": "0.1.1", 
+            "type": "tool", 
+            "user_outputs": []
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+            "id": 5, 
+            "input_connections": {
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+                    "output_name": "output"
+                }
+            }, 
+            "inputs": [], 
+            "name": "Methylation by Region Converter", 
+            "outputs": [
+                {
+                    "name": "output", 
+                    "type": "tabular"
+                }, 
+                {
+                    "name": "summary", 
+                    "type": "txt"
+                }
+            ], 
+            "position": {
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+                "top": 397
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+            "post_job_actions": {}, 
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+            "type": "tool", 
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+            "input_connections": {
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+                    "output_name": "output"
+                }, 
+                "seg2": {
+                    "id": 5, 
+                    "output_name": "output"
+                }
+            }, 
+            "inputs": [], 
+            "name": "Differential Methylation", 
+            "outputs": [
+                {
+                    "name": "output", 
+                    "type": "tabular"
+                }
+            ], 
+            "position": {
+                "left": 993, 
+                "top": 308
+            }, 
+            "post_job_actions": {}, 
+            "tool_errors": null, 
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+            "tool_state": "{\"__page__\": 0, \"seg1\": \"null\", \"annot\": \"\\\"both\\\"\", \"seg2\": \"null\", \"fdr\": \"\\\"none\\\"\", \"genome\": \"\\\"bismark.dm3.BDGP5.25.62\\\"\"}", 
+            "tool_version": "1.0.0", 
+            "type": "tool", 
+            "user_outputs": []
+        }
+    }
+}
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