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Published March 10, 2023 | Version 3.1.0
Software Open

nf-core/nanoseq: nf-core/nanoseq v3.1.0 - NObelium Guppy

Creators

  • 1. Seqera Labs
  • 2. CSB10, Genome Institute of Singapore
  • 3. National Genomics Infrastructure
  • 4. @seqeralabs
  • 5. @seqeralabs | Stockholm
  • 6. University of Glasgow
  • 7. AIRAmed

Description

Major enhancements

  • Removed the guppy basecaller as distributing it via a docker image is a breach to EULA
  • Bump minimum Nextflow version from 21.10.3 -> 21.10.3
  • Update pipeline template to nf-core/tools 2.7.2
  • Update bambu version from 1.0.2 to 2.0.0
Parameters
  • Removed --flowcell as nanoseq no longer supports basecalling
  • Removed --kit as nanoseq no longer supports basecalling
  • Removed --guppy_config as nanoseq no longer supports basecalling
  • Removed --guppy_model as nanoseq no longer supports basecalling
  • Removed --guppy_gpu as nanoseq no longer supports basecalling
  • Removed --guppy_gpu_runners as nanoseq no longer supports basecalling
  • Removed --guppy_cpu_threads as nanoseq no longer supports basecalling
  • Removed --output_demultiplex_fast5 as nanoseq no longer supports basecalling
  • Removed --skip_basecalling as nanoseq no longer supports basecalling
  • Removed --skip_pycoqc as nanoseq no longer supports basecalling
Software dependencies
Dependency Old version New version
bioconductor-bambu 2.0.0 3.0.8

Files

nf-core/nanoseq-3.1.0.zip

Files (2.7 MB)

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md5:0263b49d0ce2f36577733809da6527a0
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Additional details

Related works

Is supplement to
https://github.com/nf-core/nanoseq/tree/3.1.0 (URL)