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taxprofiler/CHANGELOG.md
James Fellows Yates 8bc17cccfc Prettier
2023-04-29 18:09:09 +02:00

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nf-core/taxprofiler: Changelog

The format is based on Keep a Changelog and this project adheres to Semantic Versioning.

v1.1.0dev - [date]

Added

  • #276 Implemented batching in the KrakenUniq samples processing. (added by @Midnighter)
  • #272 - Add saving of final 'analysis-ready-reads' to dedicated directory. (❤️ to @alexhbnr for reporting, added by @jfy133)

Fixed

  • #271 Improved standardised table generation documentation nd mOTUs manual database download tutorial (♥ to @prototaxites for reporting, fix by @jfy133)
  • #269 Reduced output files in AWS full test output due to very large files
  • #270 Fixed warning for host removal index parameter, and improved index checks (♥ to @prototaxites for reporting, fix by @jfy133)
  • #274 Substituted the samtools/bam2fq module with samtools/fastq module (fix by @sofstam)
  • #275 Replaced function used for error reporting to more Nextflow friendly method (fix by @jfy133)
  • #285 Fixed overly large log files in Kraken2 output (♥ to @prototaxites for reporting, fix by @Midnighter & @jfy133)
  • #286 Runtime optimisation of MultiQC step via improved log file processing (fix by @Midnighter & @jfy133)
  • #289 Pipeline updated to nf-core template 2.8 (fix by @Midnighter & @jfy133)

Dependencies

Tool Previous version New version
MultiQC 1.13 1.14

Deprecated

v1.0.0 - Dodgy Dachshund [2023-03-13]

Initial release of nf-core/taxprofiler, created with the nf-core template.

  • Add read quality control (sequencing QC, adapter removal and merging)
  • Add read complexity filtering
  • Add host-reads removal step
  • Add run merging
  • Add taxonomic classification
  • Add taxon table standardisation
  • Add post-classification visualisation

Added

Fixed

Dependencies

Deprecated