Explore Workflows

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

Graph Name Retrieved From View
workflow graph transform.cwl

https://github.com/NCI-GDC/gdc-dnaseq-cwl.git

Path: workflows/dnaseq/transform.cwl

Branch/Commit ID: 2f7c0e92e7b88b57b86602f11c595661c374008a
workflow graph scatter-valuefrom-wf1.cwl

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

Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf1.cwl

Branch/Commit ID: fd6e054510e2bb65eed4069a3a88013d7ecbb99c
workflow graph predict-workflow.cwl

https://github.com/duke-gcb/imads-worker.git

Path: predict_service/predict-workflow.cwl

Branch/Commit ID: a6339734f522bfbe7f05d78a5de363986953a833
workflow graph trnascan_wnode and gpx_qdump combined

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

Path: bacterial_trna/wf_scan_and_dump.cwl

Branch/Commit ID: 4b8d11048f1047140b337a2cac6503d80a22d683
workflow graph Xenbase ChIP-Seq pipeline single-read

1. Convert input SRA file into FASTQ file (run fastq-dump) 2. Analyze quality of FASTQ file (run fastqc) 3. If any of the following fields in fastqc generated report is marked as failed: \"Per base sequence quality\", \"Per sequence quality scores\", \"Overrepresented sequences\", \"Adapter Content\", - trim adapters (run trimmomatic) 4. Align original or trimmed FASTQ file to reference genome (run Bowtie2) 5. Sort and index generated by Bowtie2 BAM file (run samtools sort, samtools index) 6. Remove duplicates in sorted BAM file (run picard) 7. Sort and index BAM file after duplicates removing (run samtools sort, samtools index) 8. Count mapped reads number in sorted BAM file (run bamtools stats) 9. Generate genome coverage BED file (run bedtools genomecov) 10. Sort genearted BED file (run sort) 11. Generate genome coverage bigWig file from BED file (run bedGraphToBigWig)

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

Path: workflows/xenbase-chipseq-se.cwl

Branch/Commit ID: 9bf0aa495735f8081bb5870cb32fc898b9e6eb22
workflow graph integrity.cwl

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

Path: workflows/bamfastq_align/integrity.cwl

Branch/Commit ID: 2f7c0e92e7b88b57b86602f11c595661c374008a
workflow graph 02-trim-pe.cwl

ATAC-seq 02 trimming - reads: PE

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

Path: v1.0/ATAC-seq_pipeline/02-trim-pe.cwl

Branch/Commit ID: e019c548a0bc2f17b13365abd213259887069978
workflow graph l7g-liftover.cwl

https://github.com/curoverse/l7g.git

Path: cwl-version/experimental/l7g-tile-assembly/tile-assembly-hg19/l7g-liftover.cwl

Branch/Commit ID: 2d067e70af7c1a49a2a015ddcd0d859b0b885e98
workflow graph Run genomic CMsearch (5S rRNA)

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

Path: bacterial_noncoding/wf_gcmsearch.cwl

Branch/Commit ID: 4b8d11048f1047140b337a2cac6503d80a22d683
workflow graph process VCF workflow

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

Path: definitions/subworkflows/strelka_process_vcf.cwl

Branch/Commit ID: ae75b938e6e8ae777a55686bbacad824b3c6788c