Explore Workflows
View already parsed workflows here or click here to add your own
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workflow_input_format_expr_v1_1.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/workflow_input_format_expr_v1_1.cwl Branch/Commit ID: 0ab1d42d10f7311bb4032956c4a6f3d2730d9507 |
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bam to trimmed fastqs and HISAT alignments
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bam_to_trimmed_fastq_and_hisat_alignments.cwl Branch/Commit ID: ec45fad68ca10fb64d5c58e704991b146dc31d28 |
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kmer_seq_entry_extract_wnode
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https://github.com/ncbi/pgap.git
Path: task_types/tt_kmer_seq_entry_extract_wnode.cwl Branch/Commit ID: 8ea3637b0f11eac1ea5599c41d74e00d85fb778d |
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allele-vcf-alignreads-se-pe.cwl
Workflow maps FASTQ files from `fastq_files` input into reference genome `reference_star_indices_folder` and insilico generated `insilico_star_indices_folder` genome (concatenated genome for both `strain1` and `strain2` strains). For both genomes STAR is run with `outFilterMultimapNmax` parameter set to 1 to discard all of the multimapped reads. For insilico genome SAM file is generated. Then it's splitted into two SAM files based on strain names and then sorted by coordinates into the BAM format. For reference genome output BAM file from STAR slignment is also coordinate sorted. |
https://github.com/datirium/workflows.git
Path: workflows/allele-vcf-alignreads-se-pe.cwl Branch/Commit ID: 4b8bb1a1ec39056253ca8eee976078e51f4a954e |
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Detect Variants workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/detect_variants.cwl Branch/Commit ID: a9133c999502acf94b433af8d39897e6c2cdf65f |
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FASTQ Download
FASTQ Download Assists in downloading problematic single-cell sequencing data from Sequence Read Archive (SRA) |
https://github.com/datirium/workflows.git
Path: workflows/fastq-download.cwl Branch/Commit ID: 93b844a80f4008cc973ea9b5efedaff32a343895 |
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advanced-header.cwl
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https://github.com/datirium/workflows.git
Path: metadata/advanced-header.cwl Branch/Commit ID: d7e214cefcfdabbe6b99d6d3d221998e0dc40e26 |
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Replace legacy AML Trio Assay
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/cle_aml_trio.cwl Branch/Commit ID: aba52e94b6d7470132d3c092c26d67e29d615300 |
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PCA - Principal Component Analysis
Principal Component Analysis -------------- Principal component analysis (PCA) is a statistical procedure that uses an orthogonal transformation to convert a set of observations of possibly correlated variables (entities each of which takes on various numerical values) into a set of values of linearly uncorrelated variables called principal components. The calculation is done by a singular value decomposition of the (centered and possibly scaled) data matrix, not by using eigen on the covariance matrix. This is generally the preferred method for numerical accuracy. |
https://github.com/datirium/workflows.git
Path: workflows/pca.cwl Branch/Commit ID: c5bae2ca862c764911b83d1f15ff6af4e2a0db28 |
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Seed Protein Alignments
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https://github.com/ncbi/pgap.git
Path: protein_alignment/wf_seed_seqids.cwl Branch/Commit ID: 8ea3637b0f11eac1ea5599c41d74e00d85fb778d |
