VGP hybrid scaffolding with Bionano optical maps
Version 1

Workflow Type: Galaxy

Performs scaffolding using Bionano Data. Part of VGP assembly pipeline.

Inputs

ID Name Description Type
Bionano Data n/a Bionano data in Cmap format.
  • File
Conflict resolution files n/a Input a conflict resolution file indicating which NGS and BioNano conflicting contigs to be cut [optional] (-M)
  • File
Estimated genome size - Parameter File n/a Parameter file generated in the VGP Hifiasm workflow. Estimated reference genome size (in bp) for computing NGx statistics
  • File
Hifiasm Purged Assembly n/a The assembly from "VGP-Hifiasm" workflow.
  • File
Pacbio trimmed reads n/a n/a
  • File

Steps

ID Name Description
10_Quast n/a n/a
3_Input parameter n/a n/a
6_Parse parameter value n/a n/a
7_Bionano Hybrid Scaffold n/a n/a
8_Concatenate datasets n/a n/a
9_Busco n/a n/a

Version History

Version 1 (earliest) Created 5th Apr 2022 at 23:21 by Cristóbal Gallardo

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Created: 5th Apr 2022 at 23:21

Last used: 28th Jun 2022 at 16:09

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