ONTBasecall

ONTBasecall

description
Basecall ONT reads

Inputs

Required

  • gcs_fast5_dir (String, required): GCS path to the directory containing fast5 files
  • gcs_out_root_dir (String, required): GCS path to the root directory for output
  • prefix (String, required): Prefix for output directory

Optional

  • barcode_kit (String?): Guppy barcode kit
  • Guppy.num_shards (Int?)
  • Guppy.protocol_run_id (String?)
  • Guppy.sample_name (String?)
  • Guppy.Basecall.runtime_attr_override (RuntimeAttr?)
  • Guppy.FinalizeBasecalls.runtime_attr_override (RuntimeAttr?)
  • Guppy.ListFast5s.runtime_attr_override (RuntimeAttr?)
  • Guppy.MakeFinalSummary.runtime_attr_override (RuntimeAttr?)
  • Guppy.MakeSequencingSummary.runtime_attr_override (RuntimeAttr?)
  • Guppy.PartitionFast5Manifest.runtime_attr_override (RuntimeAttr?)
  • Guppy.SumFailingFastqs.runtime_attr_override (RuntimeAttr?)
  • Guppy.SumPassingFastqs.runtime_attr_override (RuntimeAttr?)
  • Guppy.TimestampStopped.runtime_attr_override (RuntimeAttr?)
  • Guppy.UniqueBarcodes.runtime_attr_override (RuntimeAttr?)

Defaults

  • config (String, default="dna_r10.4.1_e8.2_400bps_sup.cfg"): Guppy config file
  • Guppy.flow_cell_id (String, default="unknown")
  • Guppy.instrument (String, default="unknown")
  • Guppy.Basecall.zones (String, default="us-central1-a us-central1-b us-central1-c us-central1-f")
  • Guppy.SumFailingFastqs.prefix (String, default="sum"): Prefix for output directory
  • Guppy.SumPassingFastqs.prefix (String, default="sum"): Prefix for output directory

Outputs

  • gcs_basecall_dir (String)

Dot Diagram

ONTBasecall