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Update parameter ordering
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seppinho committed Mar 5, 2024
1 parent 615b6f1 commit 38485b7
Showing 1 changed file with 18 additions and 12 deletions.
30 changes: 18 additions & 12 deletions cloudgene.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -50,7 +50,7 @@ workflow:
label: "Annotation"
view: progressbar
- process: "MTDNA_SERVER_2:COVERAGE_ESTIMATION"
label: "Calculating VAF Coverage"
label: "Estimating required VAF Coverage"
view: progressbar
- process: "MTDNA_SERVER_2:HAPLOGROUPS_CONTAMINATION"
label: "Haplogroup % Contamination Detection"
Expand All @@ -71,28 +71,43 @@ workflow:
- id: reference
description: Reference
type: list
visible: true
value: "rcrs"
values:
"rcrs": "rCRS"

- id: mode
description: Mode
type: list
value: fusion
values:
mutserve: mutserve2 (SNV only)
mutect2: mutect2 (SNV+INDEL)
fusion: fusion (mutserve2 + mutect2)

- id: detection_limit
description: Detection Limit
type: list
value: 0.01
value: 0.02
values:
0.01: 0.01
0.02: 0.02
0.03: 0.03
0.04: 0.04
0.05: 0.05
0.1: 0.1

- id: coverage_estimation
description: Coverage Estimation for Diagnostic NGS
description: Apply Coverage Estimation for Diagnostic NGS
type: list
value: off
values:
on: On
off: Off

- id: myseparator0
type: separator

- id: baseQ
description: Minimal Base Quality
type: number
Expand All @@ -105,15 +120,6 @@ workflow:
visible: true
value: 20

- id: mode
description: Mode
type: list
value: fusion
values:
mutserve: mutserve (SNV only)
mutect2: mutect2 (SNV+INDEL)
fusion: fusion (mutserve + mutect2)

outputs:

- id: output_reports
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