MotrpacBicQC v0.9.5

Proteomics update: QC support for tmt-18

What's Changed

• Enable TMT-18 by @biodavidjm in #240
• MotrpacBicQC 0.9.5: proteomics tmt-18 support by @biodavidjm in #241

Full Changelog: v0.9.4...v0.9.5

MotrpacBicQC v0.9.4

• Enhance and improve dl_read_gcp:
  • Check if gsutil path is correct and report back to the user if it is not
  • Handle spaces in folder names (although it is not recommended)
  • Improve detecting the source of errors
  • Improve verbosity and feedback to the user

MotrpacBicQC v0.9.3

What's Changed

• Critical update validate_refmetname: ensure checking the refmet standardized name. Update refmet tests
• Update get_and_validate_mdd()
  • Update REST service URL
  • Update Documentation
  • Remove dependency on data.table
• Enhance: only one metadata_phase file allowed
• Enhance dl_read_gcp: replace data table by read_delim
• Enhance open_file: accept only tab-delimited files

Full Changelog: v0.9.2...v0.9.3

MotrpacBicQC 0.9.2

Critical Update: Resolved an issue where the validation of refmet names was compromised due to updates to the Metabolomics Workbench REST service. This version introduces adjustments to ensure accurate validation of refmet names.

MotrpacBicQC 0.9.1

• New assay: PROT_OX
• Fix package conflicts
• OLINK: write release adjustments

MotrpacBicQC 0.9.0

• Add support for OLINK datasets (check olink_qc vignette to find out more)
• Adjust function to download data from GCP (dl_read_gcp): it automatically detects the operating system (arguments ignore_std_err and ignore_std_out deprecated)
• Multiple fixes and enhancements

MotrpacBicQC 0.8.9

• Fix bug preventing the processing of BICRESULTS folders (proteomics)
• Make clear that the metadata_phase.txt file is required
• Other enhancements

MotrpacBicQC 0.8.8

Add 24 hours time support for the acquisition_date (MM/DD/YYYY HH:MM:SS)

MotrpacBicQC 0.8.7

• Add QC for the new required batching variables
• Replace deprecated ggplot function
• Fix issues with dl_read_gcp
• It requires R version > 4.1.0
• Other adjustments

MotrpacBicQC 0.8.6

This package provides a set of functions for Primary and Secondary QC/QA analysis of datasets generated by the Metabolomics and Proteomics MoTrPAC Chemical Analysis Sites (CAS