Explore Workflows

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Graph Name Retrieved From View
workflow graph gatk4.2.4.1_mutect2_workflow.cwl

GATK4.2.4.1 Mutect2 workflow

https://github.com/NCI-GDC/gatk4_mutect2_cwl.git

Path: subworkflows/gatk4.2.4.1_mutect2_workflow.cwl

Branch/Commit ID: master
workflow graph EMG core analysis

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: workflows/emg-core-analysis-v4.cwl

Branch/Commit ID: master
workflow graph Perform camera calibration

Camera calibration data (from telescope-level calibration events) will be recorded alongside science data during and around each observation night by ACADA. Different calibration event types will be recorded to the different streams at this stage. Interleaved flat-field and sky pedestal events are tagged at the telescope level, allowing the data to directly align with the functional decomposition of the CalibPipe and avoid the need of additional event-type filtering. Following this, pixel- and channel-wise camera calibration coefficients are calculated as a function of time. This process includes the computation of aggregated time-series statistics for the calibration events, as well as the detection of non-nominal pixels and time periods (UC-120-2.21). The aggregated statistics are further processed to derive the sky pedestal offsets per waveform sample, flat-fielding coefficients, and pixel timing corrections. Additionally, the CalibPipe calculates the absolute gain for each pixel and gain channel as a function of time. This process will ultimately yield a multiplicative coefficient for the absolute calibration of extracted charge into photoelectrons. To achieve accurate absolute gain and charge calibration, CalibPipe derives telescope-specific systematic corrections (UC-120-2.22) and the conversion factors from digital counts to single photoelectrons (UC-120-2.23).

https://gitlab.cta-observatory.org/cta-computing/dpps/calibrationpipeline/calibpipe.git

Path: workflows/telescope/camera/uc-120-2.20-perform-camera-calibration.cwl

Branch/Commit ID: rc-1.0
workflow graph multiple.cwl

https://github.com/gijzelaerr/spiel.git

Path: multiple.cwl

Branch/Commit ID: tutorial
workflow graph cnv_manta

CNV Manta calling

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/cnv_manta.cwl

Branch/Commit ID: 3bb03c9b
workflow graph mixed_library_metrics.cwl

https://github.com/denis-yuen/gdc-dnaseq-cwl.git

Path: workflows/dnaseq/mixed_library_metrics.cwl

Branch/Commit ID: master
workflow graph workflow-fetch-hmmscan.cwl

https://github.com/ebi-jdispatcher/webservice-cwl.git

Path: workflows/workflow-fetch-hmmscan.cwl

Branch/Commit ID: master
workflow graph rhapsody_targeted_1.9-beta.cwl#VDJ_Annotate_Reads.cwl

https://github.com/longbow0/cwl.git

Path: v1.9-beta/rhapsody_targeted_1.9-beta.cwl

Branch/Commit ID: master

Packed ID: VDJ_Annotate_Reads.cwl
workflow graph cmsearch-multimodel.cwl

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/cmsearch-multimodel.cwl

Branch/Commit ID: 0cf06f1
workflow graph wf_rescue_ratio_2inputs.cwl

Calculates the rescue ratio (see Gabe's protocols paper), given two eCLIP IP samples and 2 size-matched input samples. Also returns the reproducible peaks given these two samples. This is different from the 1input workflow in that each INPUT is first merged together and is used downstream instead of the 1input version, which remains unmodified. Merged inputs are NOT used in calculating true reproducible peaks.

https://github.com/YeoLab/merge_peaks.git

Path: cwl/wf_rescue_ratio_2inputs.cwl

Branch/Commit ID: master