Changelog • pRoloc

Changes in version 1.43.2

Fix/update dunkley2006param object.

Changes in version 1.43.1

Fix syntax in man pages.

Changes in version 1.43.0

New devel version

Changes in version 1.39.1

Update transfer learning vignette to use hpar 1.41.

Changes in version 1.39.0

New devel version (Bioc 3.17)

Changes in version 1.37.1

Fix bug in PerTubro classifiction function (see #146 and #147), contributed by mgerault.

Changes in version 1.31.1

Fix failing unit test, by setting RNGseed in SerialParam() (fix by ococrook, see #142).

Changes in version 1.31.0

New devel version (Bioc 3.14)

Changes in version 1.31.3

lopims() function moved to lgatto/lopims package on GitHub

Changes in version 1.31.2

Update dunkley2006params, andy2011params and MartInterfaces objects

Changes in version 1.31.1

Suggest magick (needed to build vignette)

Changes in version 1.31.0

New devel version (Bioc 3.13)

Changes in version 1.29.0

New devel version (Bioc 3.12)

Changes in version 1.29.1

Removed duplicate colour in getStockCol and updated the colour palette <Tue 2020-09-08>

Changes in version 1.28.0

New release version (Bioc 3.11)

Changes in version 1.27.6

Depend on MLInterfaces 1.67.10

Changes in version 1.27.5

import stats4::plot <2020-03-26 Thu>

Changes in version 1.27.4

Import missing mclust::mclustBIC

Changes in version 1.27.3

Remove exprsToRatio man page (function in MSnbase and is deprecated)

Changes in version 1.27.2

Fix errors related to R-devel

Changes in version 1.27.1

Merged plotting payes PR

Changes in version 1.27.0

Version bump for Bioc 3.11 (devel)

Changes in version 1.25.3

New spatial2D function <2019-09-24 Tue>

Changes in version 1.25.2

Fix new biomart attribute <2019-08-09 Fri>
Bug fix: pass fcol to helper function (see https://support.bioconductor.org/p/123614/) <2019-08-09 Fri>

Changes in version 1.25.1

Always use mvtnorm::dmvnorm <2019-06-21 Fri>

Changes in version 1.25.0

Version bump for Bioc 3.10 (devel)

Changes in version 1.24.0

Version bump for Bioc 3.9 (release)

Changes in version 1.23.4

Remove plain NEWS now that R supports NEWS.md

Changes in version 1.23.3

Link to TAGM F1000 workflow <2019-04-11 Thu>
Add ref to TAGM F1000 in CITATION and README <2019-04-11 Thu>
Update biomart interface data and AnnotationParams-related code <2019-04-12 Fri>

Changes in version 1.23.2

Add mcmc helper functions.
New logPosteriors accessor for MAPParams object.
New plotConsProfiles function, contributed by Tom Smith (see PR #131).
Update TAGM vignette, refering to workflow <2019-03-14 Thu>

Changes in version 1.23.1

Add note about missing data in QSep man <2018-10-31 Wed>
Add mcmc-helper documentation <2018-11-04 Sun>
Fixing numerical instability in Cholesky decomposition (see #124) <2018-11-30 Fri>
Add option to display or not display grid in plot2D <2018-12-12 Wed>
mrkHClust now uses mrkConsProfiles and returns the hclust object - see issue #130 for details and background <2018-12-19 Wed>

Changes in version 1.23.0

New version for Bioc 3.9 devel

Changes in version 1.22.0

New version for Bioc 3.8 release

Changes in version 1.21.9

Fix type in vignette header <2018-09-18 Tue>
Fix bug in plot method for ThetaRegRes object <2018-09-24 Mon>

Changes in version 1.21.8

Add an fcol argument to plotDist to plot and colour all profiles <2018-08-09 Thu>

Changes in version 1.21.7

Use BiocManager in vignette
Fix bug in plot2D: pass … to hexbin <2018-08-02 Thu>

Changes in version 1.21.6

Use BiocManager in installation instructions

Changes in version 1.21.5

Added new section in Bayesian spatial proteomics vignette detailing mcmc output processing <2018-07-07 Sat>

Changes in version 1.21.4

Fix bugs in tagmMcmcPredict, where fcol was ignored <2018-06-05 Tue>
Order vignettes by prefixing the files with numbers <2018-06-05 Tue>

Changes in version 1.21.3

New TAGM-MCMC generative model, contributed by Oliver Crook <2018-05-18 Fri>

Changes in version 1.21.2

Version bump for BiocStyle update: Vignette needed to be rebuilt to have bug fixed in BiocStyle footnote rendering.

Changes in version 1.21.1

Fix bug in higlightOnPlot with missing fcol (see #105) <2018-05-03 Thu>
New TAGM-MAP generative model, contributed by Oliver Crook <2018-05-18 Fri>
New plotEllipse function to visualise and assess TAGM models <2018-05-18 Fri>

Changes in version 1.20.0

New Bioconductor release 3.7

Changes in version 1.19.4

Fix regression bug in knntl function <2018-04-12 Thu>

Changes in version 1.19.3

Use dplyr::left_join without attaching dplyr to avoid collision between Biobase::exprs and dplyr::exprs <2018-04-04 Wed>.
Typo in warning to install rgl <2018-03-27 Tue>

Changes in version 1.19.2

Fix bug in QSep that prevented to set non-default fcol <2018-01-29 Mon>

Changes in version 1.19.1

Fix bug in private dimred and set appropriate number of colnames <2017-11-07 Tue>
New nipals method in dimensionality reduction for plot2D (closes issue #103) <2018-01-16 Tue>

Changes in version 1.19.0

Bioconductor devel 3.7

Changes in version 1.18.0

Bioconductor release 3.6

Changes in version 1.17.5

Filtering for unique features when running plot2D with t-SNE method <2017-10-15 Sun>

Changes in version 1.17.4

Added new (private) dimred function that computes dimensionality reduction <2017-06-05 Mon>
Add F1000research workflow to citations <2017-06-22 Thu>
Classification functions now return the classification score matrix for all classes as a single column in fData, rather that each class as its own fData column. <2017-09-01 Fri>

Changes in version 1.17.3

Convert vignettes to Rmd with html output <2017-05-25 Thu>
Import, rather than suggest Rtsne <2017-05-25 Thu>

Changes in version 1.17.2

phenoDisco speed improvements and added support for t-SNE <2017-05-19 Fri>

Changes in version 1.17.1

Support Rtsne’s new pca_center and pca_scale arguments <2017-05-02 Tue>

Changes in version 1.17.0

Version bump for Bioc devel 3.6