Explore Workflows

View already parsed workflows here or click here to add your own

Graph Name Retrieved From View
workflow graph unix_align_workflow.cwl

https://github.com/nci-gdc/gdc-dnaseq-cwl.git

Path: workflows/unix/unix_align_workflow.cwl

Branch/Commit ID: 2f7c0e92e7b88b57b86602f11c595661c374008a
workflow graph Xenbase RNA-Seq pipeline single-read

1. Convert input SRA file into pair of upsrtream and downstream FASTQ files (run fastq-dump) 2. Analyze quality of FASTQ files (run fastqc with each of the FASTQ files) 3. If any of the following fields in fastqc generated report is marked as failed for at least one of input FASTQ files: \"Per base sequence quality\", \"Per sequence quality scores\", \"Overrepresented sequences\", \"Adapter Content\", - trim adapters (run trimmomatic) 4. Align original or trimmed FASTQ files to reference genome, calculate genes and isoforms expression (run RSEM) 5. Count mapped reads number in sorted BAM file (run bamtools stats) 6. Generate genome coverage BED file (run bedtools genomecov) 7. Sort genearted BED file (run sort) 8. Generate genome coverage bigWig file from BED file (run bedGraphToBigWig)

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

Path: workflows/xenbase-rnaseq-se.cwl

Branch/Commit ID: 02ffbbd7eb8e06bfb759edea440f78bdc8bb2631
workflow graph cwlsite.cwl

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

Path: cwltool/schemas/site/cwlsite.cwl

Branch/Commit ID: 5c7799a145595323d0a8628be1fe0e24985e793a
workflow graph 01-qc-pe.cwl

ChIP-seq 01 QC - reads: PE

 https://github.com/alexbarrera/GGR-cwl.git

Path: v1.0/ChIP-seq_pipeline/01-qc-pe.cwl

Branch/Commit ID: 13826f526a99e151e9cf5f22e70bdcf4feea73f4
workflow graph echo-wf.cwl

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

Path: tests/override/echo-wf.cwl

Branch/Commit ID: 478c2ffc09fb189c4f36ccb82aad945b3db5f9b3
workflow graph echo-wf.cwl

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

Path: tests/override/echo-wf.cwl

Branch/Commit ID: 4c905b830371eee45188a53510ba0ee9113fd4c8
workflow graph functional-wf.cwl

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

Path: tests/checker_wf/functional-wf.cwl

Branch/Commit ID: d64178072bc4fc9700ab80cdf90146890b96587e
workflow graph fp_filter workflow

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

Path: definitions/subworkflows/fp_filter.cwl

Branch/Commit ID: bcc6adaf15035f5ce6fc851e27b1173b0fd20c1c
workflow graph iwdr_with_nested_dirs.cwl

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

Path: cwltool/schemas/v1.0/v1.0/iwdr_with_nested_dirs.cwl

Branch/Commit ID: 4c905b830371eee45188a53510ba0ee9113fd4c8
workflow graph cache_test_workflow.cwl

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

Path: tests/wf/cache_test_workflow.cwl

Branch/Commit ID: fd6e054510e2bb65eed4069a3a88013d7ecbb99c