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Iso-Seq

Identifies transcripts in PacBio single-molecule sequencing data (HiFi reads)

https://github.com/PacificBiosciences/IsoSeq

Supports outputs generated by two commands:

  • IsoSeq refine trims poly(A) tails and removes concatemers.

  • IsoSeq cluster performs clustering using hierarchical n*log(n) alignment and iterative cluster merging.

File search patterns​

isoseq/cluster-csv:
  contents: cluster_id
  fn: "*cluster_report.csv"
  num_lines: 1
isoseq/refine-csv:
  contents: id,strand,fivelen,threelen,polyAlen,insertlen,primer
  fn: "*.csv"
isoseq/refine-json:
  contents: '"num_reads_fl"'
  fn: "*.json"