annotate ChIP-seq_Peak_Calling_-_Mouse_(mm9).ga @ 10:b1a24c47ff63 draft default tip

Fixed typos in mm9 workflow
author stemcellcommons
date Tue, 15 Jan 2019 12:15:14 -0500
parents 4b0ceb4c5971
children
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2 "a_galaxy_workflow": "true",
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3 "annotation": "{\n\t\"description\": \"Identify enriched regions (peaks) in ChIP-seq data. Reads are aligned to the mouse (mm9) reference genome.\",\n\t\"file_relationship\": {\n\t\t\"value_type\": \"LIST\",\n\t\t\"name\": \"List of FASTQ Pairs\",\n\t\t\"file_relationship\": {\n\t\t\t\"file_relationship\": {},\n\t\t\t\"value_type\": \"PAIR\",\n\t\t\t\"name\": \"Paired FASTQ files\",\n\t\t\t\"input_files\": [{\n\t\t\t\t\t\"allowed_filetypes\": [{\n\t\t\t\t\t\t\"name\": \"FASTQ\"\n\t\t\t\t\t}],\n\t\t\t\t\t\"name\": \"Treatment FASTQ\",\n\t\t\t\t\t\"description\": \"Treatment FASTQ\"\n\t\t\t\t},\n\t\t\t\t{\n\t\t\t\t\t\"allowed_filetypes\": [{\n\t\t\t\t\t\t\"name\": \"FASTQ\"\n\t\t\t\t\t}],\n\t\t\t\t\t\"name\": \"Control FASTQ\",\n\t\t\t\t\t\"description\": \"Control FASTQ\"\n\t\t\t\t}\n\t\t\t]\n\t\t}\n\t}\n}",
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4 "format-version": "0.1",
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5 "name": "ChIP-seq Peak Calling - Mouse (mm9)",
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6 "steps": {
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17 ],
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38 },
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39 "1": {
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51 "name": "Split Paired Collection",
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115 "name": "output_file",
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138 "3": {
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139 "annotation": "",
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183 "output_name": "output_file"
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184 }
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558 "annotation": "{\"out_file1\": {\"name\": \"MACS2_bigwig\", \"description\": \"\", \"type\": \"bigwig\"}}",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
559 "content_id": "wig_to_bigWig",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
560 "id": 10,
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
561 "input_connections": {
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
562 "input1": {
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
563 "id": 9,
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
564 "output_name": "outfile"
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
565 }
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
566 },
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
567 "inputs": [],
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
568 "label": null,
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
569 "name": "Wig/BedGraph-to-bigWig",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
570 "outputs": [
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
571 {
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
572 "name": "out_file1",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
573 "type": "bigwig"
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
574 }
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
575 ],
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
576 "position": {
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
577 "left": 2243.546875,
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
578 "top": 432.71875
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
579 },
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
580 "post_job_actions": {},
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
581 "tool_errors": null,
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
582 "tool_id": "wig_to_bigWig",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
583 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input1\": \"null\", \"settings\": \"{\\\"settingsType\\\": \\\"preset\\\", \\\"__current_case__\\\": 0}\"}",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
584 "tool_version": "1.1.0",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
585 "type": "tool",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
586 "uuid": "c9d04953-8508-4b6b-bbf3-edcf421eadc8",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
587 "workflow_outputs": [
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
588 {
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
589 "label": null,
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
590 "output_name": "out_file1",
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
591 "uuid": "5bbfca2d-617f-43d8-8eb9-a4d6a9a07eb8"
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
592 }
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
593 ]
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
594 }
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
595 },
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
596 "uuid": "99c95324-e964-41d7-90fe-7c70d06942cf"
4b0ceb4c5971 Add mm9 version
stemcellcommons
parents:
diff changeset
597 }