Explore Workflows
View already parsed workflows here or click here to add your own
Graph | Name | Retrieved From | View |
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cram_to_bam workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/cram_to_bam_and_index.cwl Branch/Commit ID: 389f6edccab082d947bee9c032f59dbdf9f7c325 |
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tt_blastn_wnode
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https://github.com/ncbi/pgap.git
Path: task_types/tt_blastn_wnode.cwl Branch/Commit ID: 3897218b16b30a933beecd60a98a300d677207d8 |
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pindel parallel workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/pindel.cwl Branch/Commit ID: 3a822294da63b4e19446a285e2fef075e23cf3d0 |
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kfdrc_process_pe_set.cwl
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https://github.com/kids-first/kf-alignment-workflow.git
Path: subworkflows/kfdrc_process_pe_set.cwl Branch/Commit ID: 09c05e788df9cd77cead39892fd02140faa765a8 |
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dedup-3-pass.cwl
run 3-pass dedup: algo LocusCollector + algo Dedup output_dup_read_name + algo Dedup dedup_by_read_name sequentially |
https://github.com/Sentieon/Sentieon-cwl.git
Path: stage/dedup-3-pass.cwl Branch/Commit ID: 845f4699c5fce96a4c708a553b3701c9cf296653 |
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scatter GATK HaplotypeCaller over intervals
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/gatk_haplotypecaller_iterator.cwl Branch/Commit ID: 10870aefd20469e728969269ff3c54b3b8339a18 |
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FastQC - a quality control tool for high throughput sequence data
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: 4360fb2e778ecee42e5f78f83b78c65ab3a2b1df |
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Interval overlapping alignments counts
Interval overlapping alignments counts ====================================== Reports the count of alignments from multiple samples that overlap specific intervals. |
https://github.com/datirium/workflows.git
Path: workflows/bedtools-multicov.cwl Branch/Commit ID: 4a5c59829ff8b9f3c843e66e3c675dcd9c689ed5 |
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umi duplex alignment workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/duplex_alignment.cwl Branch/Commit ID: d3e4bf55753cd92f97537c7d701187ea92d1e5f0 |
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qiime2 identify differentially abundant features
Differential abundance testing with ANCOM from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/ |
https://github.com/Duke-GCB/bespin-cwl.git
Path: packed/qiime2-step2-deblur.cwl Branch/Commit ID: ef08cb00bd55b4c712645d171dbc691e01ed6165 Packed ID: qiime2-09-ancom.cwl |