COVID-19 PubSeq Pangenome Generate
Version 1

Workflow Type: Common Workflow Language
Work-in-progress
No description specified

Inputs

ID Name Description Type
inputReads n/a n/a
  • File[]
metadata n/a n/a
  • File[]
metadataSchema n/a n/a
  • File
subjects n/a n/a
  • string[]
exclude n/a n/a
  • File?
bin_widths n/a width of each bin in basepairs along the graph vector
  • int[]
cells_per_file n/a Cells per file on component_segmentation
  • int

Steps

ID Name Description
relabel n/a n/a
dedup n/a n/a
overlapReads n/a n/a
induceGraph n/a n/a
buildGraph n/a n/a
vizGraph n/a n/a
odgi2rdf n/a n/a
mergeMetadata n/a n/a
bin_paths n/a n/a
index_paths Create path index n/a
segment_components Run component segmentation n/a

Outputs

ID Name Description Type
odgiGraph n/a n/a
  • File
odgiPNG n/a n/a
  • File
seqwishGFA n/a n/a
  • File
odgiRDF n/a n/a
  • File
readsMergeDedup n/a n/a
  • File
mergedMetadata n/a n/a
  • File
indexed_paths n/a n/a
  • File
colinear_components n/a n/a
  • Directory

Version History

Version 1 (earliest) Created 7th Oct 2020 at 10:36 by Michael R. Crusoe

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Frozen Version-1 c89b183
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Citation
Soiland-Reyes, S., & Crusoe, M. R. (2022). COVID-19 PubSeq Pangenome Generate. WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.63.1
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Views: 883   Downloads: 59

Created: 7th Oct 2020 at 10:36

Last updated: 21st Sep 2022 at 10:26

Last used: 30th Sep 2022 at 11:32

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Total size: 3.38 KB
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