Explore Workflows

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

Graph Name Retrieved From View
workflow graph schemadef-wf.cwl

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

Path: tests/schemadef-wf.cwl

Branch/Commit ID: 5f27e234b4ca88ed1280dedf9e3391a01de12912
workflow graph cache_asnb_entries

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

Path: task_types/tt_cache_asnb_entries.cwl

Branch/Commit ID: 7b5130d2408bce82ee15c666b37d931ef6f452e3
workflow graph 01-qc-se.cwl

ChIP-seq 01 QC - reads: SE

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

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

Branch/Commit ID: 33385c6a820a9d4d18cff6fc3a533ec8e3c11c6e
workflow graph RNA-Seq pipeline single-read stranded mitochondrial

Slightly changed original [BioWardrobe's](https://biowardrobe.com) [PubMed ID:26248465](https://www.ncbi.nlm.nih.gov/pubmed/26248465) **RNA-Seq** basic analysis for **strand specific single-read** experiment. An additional steps were added to map data to mitochondrial chromosome only and then merge the output. Experiment files in [FASTQ](http://maq.sourceforge.net/fastq.shtml) format either compressed or not can be used. Current workflow should be used only with single-read strand specific RNA-Seq data. It performs the following steps: 1. `STAR` to align reads from input FASTQ file according to the predefined reference indices; generate unsorted BAM file and alignment statistics file 2. `fastx_quality_stats` to analyze input FASTQ file and generate quality statistics file 3. `samtools sort` to generate coordinate sorted BAM(+BAI) file pair from the unsorted BAM file obtained on the step 1 (after running STAR) 5. Generate BigWig file on the base of sorted BAM file 6. Map input FASTQ file to predefined rRNA reference indices using Bowtie to define the level of rRNA contamination; export resulted statistics to file 7. Calculate isoform expression level for the sorted BAM file and GTF/TAB annotation file using `GEEP` reads-counting utility; export results to file

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

Path: workflows/rnaseq-se-dutp-mitochondrial.cwl

Branch/Commit ID: bfa3843bcf36125ff258d6314f64b41336f06e6b
workflow graph Telescope Calibration

This workflow performs telescope calibrations and provides camera calibrations, psfs and optical throughputs.

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

Path: workflows/calibpipe/TelescopeCalibrations/uc-cp-200.cwl

Branch/Commit ID: 76f7c25c0472da23b7e0bfe9f2c18ab6bc369c9d
workflow graph Seed Search Compartments

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

Path: protein_alignment/wf_seed.cwl

Branch/Commit ID: 91181df8d9ef8eed9d8f40db707b9a4376fecaf5
workflow graph umi per-lane alignment subworkflow

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

Path: definitions/subworkflows/umi_alignment.cwl

Branch/Commit ID: d2c2f2eb846ae2e9cdcab46e3bb88e42126cb3f5
workflow graph Filter Protein Seeds; Find ProSplign Alignments

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

Path: protein_alignment/wf_compart_filter_prosplign.cwl

Branch/Commit ID: 91181df8d9ef8eed9d8f40db707b9a4376fecaf5
workflow graph revsort-single-no-docker.cwl

Reverse the lines in a document, then sort those lines.

 https://github.com/Duke-GCB/calrissian.git

Path: input-data/revsort-single-no-docker.cwl

Branch/Commit ID: b9e4ce1b42021dec90b645e924eb698261c630ed
workflow graph Atmopsheric Calibration

This workflow performs calibrates atmosphere and produces an atmospheric model and an extinction hypercube.

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

Path: workflows/calibpipe/AtmosphericCalibrations/uc-cp-100.cwl

Branch/Commit ID: 76f7c25c0472da23b7e0bfe9f2c18ab6bc369c9d