Explore Workflows

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/subworkflows/vcf_eval_concordance.cwl

Branch/Commit ID: low-vaf

Set FADC pulse for high and low-gain channel. Apply transformations required by the simulation model (e.g., normalization, time shift)

https://github.com/gammasim/workflows.git

Path: workflows/SetReadoutPulseShape.cwl

Branch/Commit ID: main

Compare simulated and measured pedestal events (exposed to night-sky background light and with closed camera lid).

https://github.com/gammasim/workflows.git

Path: workflows/ValidatePedestalEvents.cwl

Branch/Commit ID: main

Workflow to find hotspot VAFs from duplex (for Tumor sample) and unfiltered (for Normal sample) pileups. These inputs are all required to be sorted in the same order: sample_ids patient_ids sample_classes unfiltered_pileups duplex_pileups

https://github.com/andurill/access-pipeline.git

Path: workflows/subworkflows/find_hotspots_in_normals.cwl

Branch/Commit ID: master

Assemble a set of reads using SKESA

https://github.com/ncbi/pgap.git

Path: assemble.cwl

Branch/Commit ID: test

This is a workflow to go from UMI-tagged fastqs to standard bams. It does not include collapsing, or QC It does include modules 1 and 2

https://github.com/andurill/ACCESS-Pipeline.git

Path: workflows/standard_pipeline.cwl

Branch/Commit ID: 0.0.33_dmp

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/qc_exome_no_verify_bam.cwl

Branch/Commit ID: master

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

Path: tools/collate_unique_SSU_headers.cwl

Branch/Commit ID: 5dc7c5c

https://github.com/tmooney/cancer-genomics-workflow.git

Path: definitions/subworkflows/varscan.cwl

Branch/Commit ID: downsample_and_recall

https://github.com/cancerit/workflow-seq-import.git

Path: cwls/chksum_for_a_corrupted_xam_file.cwl

Branch/Commit ID: 0.5.1