| b8ece218 |
Changes 1.13.5
+ improve consistency between methods in fold change computations
+ better handling of NA in fold change computations
|
| 4c94414e |
Changes 1.13.4
+ fix PLSDA predicted group assignment
+ add option to PLSDA to use probability for yhat for predictions
+ update tests
|
| e29c8498 |
Changes 1.13.3
+ d-ratio equations changed to match Broadhurst et al (2018)
+ add tests for d-ratio
+ fix PCA eigenvalues calculation
|
| ec7d0158 |
Changes 1.13.2
+ d-ratio filter now correctly removes features
+ update descriptions/documentation for missing value filters
+ add tests for d-ratio
|
| 81ee428b |
Changes 1.13.1
+ hotfix vector_norm now correctly normalises samples to length 1
+ re-sync with Bioc devel
+ fix broken documentation
|
| afe7d71d |
Changes 1.7.2
+ internal updates to PLS
+ some PLS charts have been renamed for consistency with other methods
Changes 1.6.1
+ hotfix vector_norm now correctly normalises samples to length 1
+ added vector_norm_tests
|
| 33a0ec90 |
Changes 1.5.7
+ improve NA handling in fold_change computations
|
| 9046490a |
Changes 1.5.5
+ change t-test outputs to data.frame
+ fix NA bug in feature_boxplot chart
+ use new ontology system in place of stato
Changes 1.4.2
+ fix fold change threshold using median (#56)
+ HSD param "unbalanced" is no longer ignored
|
| 41716016 |
Changes 1.5.2
|
| 9046490a |
+ add outputs to auto-generated documentation
+ fix fold change threshold using median (#56)
+ add fold change using means (#57)
+ HSD param "unbalanced" is no longer ignored
|
| 41716016 |
|
| 53e2c8dd |
Changes 1.5.1
+ fixed broken paired tests
Changes 1.4.1
+ fixed broken paired tests
|
| 3ee3b4a2 |
Changes 1.4.0
+ added VIP summary chart
|
| 98292b2e |
+ add ellipse plotting options to pca_scores_plot
|
| 6fffcc49 |
+ mv_sample_filter can be used in train/predict mode
|
| 26ef9a1c |
+ Documentation updates
+ Minor issue fixes
+ Add median method for fold change
+ Update PQN with new inputs/outputs due to changes in pmp package
+ Update SBC with new inputs/outputs due to changes in pmp package
+ Update MTBLS79 due to changes in SBC
|
| d0f81a51 |
Changes 1.1.2
+ Documentation updates
+ Bug fixes
Changes 1.0.1
+ Fix HCA bug
Changes 1.0.0
+ Bioconductor 3.11 release
|
| 84a830ef |
Changes 0.99.10
+ add Metabolmics BiocView
+ fix missing sections at end of vignette
|
| b1f18ce4 |
Changes 0.99.9
+ add proteomics vignette
+ add mean_of_medians
|
| d5e8068f |
+ merge all vignettes
+ fix bug in kfold_xval_grid
|
| b1f18ce4 |
|
| 6daf6f4e |
Changes 0.99.8
+ added stratified splitting (stratified_split)
+ added Gastric Cancer vignette
+ add AUC metric
+ add predicted and ROC plots for PLSDA
|
| c4dcd4a1 |
Changes 0.99.7
+ minor documentation updates
|
| 926e5df5 |
Changes 0.99.6
+ fix issues using class() due to changes in R 4.0.0
|
| 000084e8 |
Changes 0.99.5
+ fix dimnames mismatch for knn-impute
+ add additional vignettes
|
| e07de814 |
Changes 0.99.4
+ Add SVM, nroot transform, constant sum norm
+ Add funtionality to autoscaling
+ Fix some issues with permutation testing of model sequences
+ Add option to impute by samples to knn
+ Add custom feature labels option to pca loadings
|
| 40f09ced |
Changes 0.99.3
+ Fix dimnames mismatch errors
+ Updated struct depency to 0.99.5
|
| 40be1b5c |
Changes 0.99.2
+ renamed some charts containing .'s to use underscores
+ renamed sbcms dataset to MTBLS79
Changes 0.99.1
+ minor updates to pass Bioconductor checks
|
| 4391cdba |
Changes 0.99.0
+ use new struct v0.99.4 class constructor functions
Release 0.8.4
+ Final working version befor bioconductor updates
|
| b4cc36bf |
Changes in version 0.4.0 (2019-07-25)
+ Minor bug fixes
+ Added tsne method
+ Added sbcms dataset
+ Added methods related to signal/batch correction
|
