Explore Workflows

FastQC - a quality control tool for high throughput sequence data ===================================== FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis. The main functions of FastQC are: - Import of data from FastQ files (any variant) - Providing a quick overview to tell you in which areas there may be problems - Summary graphs and tables to quickly assess your data - Export of results to an HTML based permanent report - Offline operation to allow automated generation of reports without running the interactive application

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

Path: workflows/fastqc.cwl

Branch/Commit ID: bf80c9339d81a78aefb8de661bff998ed86e836e

Alpha and beta diversity analysis from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

https://github.com/Duke-GCB/bespin-cwl.git

Path: packed/qiime2-step3-alpha-analysis.cwl

Branch/Commit ID: 777dbcd05b5d115371dcda6d54ebaf75dae8afb8

Packed ID: qiime2-06-alpha-beta-diversity.cwl

https://github.com/d3b-center/canine-dev.git

Path: subworkflows/canine_mutation_burden_module.cwl

Branch/Commit ID: 462aaebbd442e84ea101b45b716df0174b88512e

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

Path: subworkflows/allele-process-strain.cwl

Branch/Commit ID: dda9e6e06a656b7b3fa7504156474b962fe3953c

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/conflict-wf.cwl

Branch/Commit ID: 814bd0405a7701efc7d63e8f0179df394c7766f7

Packed ID: collision

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/step-valuefrom-wf.cwl

Branch/Commit ID: 31ec48a8d81ef7c1b2c5e9c0a19e7623efe4a1e2

Quality Control (raw data), Raw Data trimming and Quality Control (pre-processed)

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

Path: structuralvariants/subworkflows/trimmed_fastq.cwl

Branch/Commit ID: 992f84a959e1776acf3be77d2ca15fe11fa8673d

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

Path: definitions/subworkflows/qc_wgs.cwl

Branch/Commit ID: 641083e9ed933d388f36fa04c00c20a810599e94

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

Path: task_types/tt_align_sort_sa.cwl

Branch/Commit ID: 205f4ceb47ba7537a6923d2dfb03668317c2fd89

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

Path: definitions/pipelines/detect_variants_wgs.cwl

Branch/Commit ID: f615832615c3b41728df8e47b72ef11e37e6a9e5