DST blues

What's Changed

• aorta -> vena cava by @nicolerg in #49

Full Changelog: v1.9.1...v2.0.0

Tag sale

What's Changed

• Update MotrpacRatTraining6mo version requirement

Full Changelog: v1.8.0...v1.9.1

Ready for the World

Data for analysis of the MoTrPAC endurance exercise training study in 6-month-old rats.
The goal of this release is to generate a citation in Zenodo

Happy New Year!

Summary

• Add PROT_FEATURE_ANNOT, PHOPSHO_FEATURE_ANNOT, UBIQ_FEATURE_ANNOT,
  ACETYL_FEATURE_ANNOT, TRNSCRPT_FEATURE_ANNOT. #43
• Add graphical_cluster column to GRAPH_PW_ENRICH.
• In TRAINING_REGULATED_FEATURES only, calculate missing timewise_logFC_se
  for METHYL features: timewise_logFC_se = timewise_logFC/timewise_zscore #44
• Change URLs for ATAC_FEATURE_ANNOT and METHYL_FEATURE_ANNOT.
• Update @source entries.
• Require newest version of MotrpacRatTraining6mo.

What's Changed

• feature annot by @nicolerg in #45
• feature annot by @nicolerg in #46

Full Changelog: v1.7.0...v1.8.0

Deck the halls

Summary

• Update phenotypic data (PHENO) to v3, which includes changes to the VO2max data as announced by the BIC.
  Retain old column names for backwards compatibility.
• Copy all training-dea tables to GCP and add documentation (TRAINING_DA).
• Add details of metabolomics meta-regression to METAB_DA_METAREG.

What's Changed

• pheno, training-da, meta-reg by @nicolerg in #39

Full Changelog: v1.6.1...v1.7.0

Do the shuffle

Summary

• Fix shuffled PIDs in METAB_NORM_DATA_FLAT and IMMUNO_NORM_DATA_FLAT introduced by not reordering the list returned by MotrpacRatTraining6mo::viallabel_to_pid(). METAB_NORM_DATA_NESTED and IMMUNO_NORM_DATA_NESTED are unchanged.
• Regenerate TRAINING_REGULATED_NORM_DATA and TRAINING_REGULATED_NORM_DATA_NO_OUTLIERS to account for changes above.

What's Changed

• fix shuffled sample IDs by @nicolerg in #37

Full Changelog: v1.6.0...v1.6.1

Need for speed

Summary

• Add TRAINING_REGULATED_NORM_DATA and TRAINING_REGULATED_NORM_DATA_NO_OUTLIERS
• Fix missing feature labels in METAB_NORM_DATA_FLAT

What's Changed

• Add merged sample-level data for training-regulated features by @nicolerg in #35

Full Changelog: v1.5.0...v1.6.0

Phosfun

Summary

• Add rat-to-human protein phosphorylation site map: RAT_TO_HUMAN_PHOSPHO

What's Changed

• ptm map by @nicolerg in #34

Full Changelog: v1.4.0...v1.5.0

Slim down

Summary

• Add FEATURE_TO_GENE_FILT for faster indexing

What's Changed

• add links to biorxiv preprint by @nicolerg in #30
• add FEATURE_TO_GENE_FILT by @nicolerg in #31

Full Changelog: v1.3.3...v1.4.0

Prepare to be analyzed

Summary

• First release
• New site: https://motrpac.github.io/MotrpacRatTraining6moData/
• New vignette: https://motrpac.github.io/MotrpacRatTraining6moData/articles/tutorial.html
• Ready for submission!

What's Changed

• documentation and immuno meta by @nicolerg in #21
• minor doc edits by @nicolerg in #22
• documentation by @nicolerg in #24
• fix metareg feature by @nicolerg in #25
• update readme by @nicolerg in #26
• add vignette by @nicolerg in #27
• add pkgdown site by @nicolerg in #28

Full Changelog: https://github.com/MoTrPAC/MotrpacRatTraining6moData/commits/v1.3.3