Changelog
Source:NEWS.md
teal.modules.hermes 0.1.6.9022
Miscellaneous
- Added placeholders for
assaySpec
,adtteSpec
andgeneSpec
inputs when no option is selected. - Disabled the select input for
assaySpec
andadtteSpec
when there are no options available. - For module developers: The module gets
teal_data
object in the UI andreactive(<teal_data>)
in the server
Enhancements
- Updated the documentation and vignettes with the new way of specifying data for
teal::init()
. Thedata
argument acceptsteal_data
object. - Added
teal.logger
functionality for logging changes in shiny inputs in all modules.
teal.modules.hermes 0.1.5
teal.modules.hermes 0.1.4
- Added the
teal.reporter
functionality to all modules. - Add installation instruction
teal.modules.hermes 0.1.3
- Improve the selection of sample variables in the forest module (
tm_g_forest_tte
) such that only categorical variables can be selected in the first place.
teal.modules.hermes 0.1.2
- Rewrote modules to use
moduleServer
and updated call toplot_with_settings_srv
after changes inteal.devel
. - Replaced calls to
teal::root_modules
withteal::modules
following deprecation ofteal::root_modules
. - Added basic logging to the modules.
- Fixed the
geneSpecInput
so that thehermes
app doesn’t fail anymore (on chrome) on an experiment with no genes.
teal.modules.hermes 0.1.1
Bug Fixes
- Updated legend for the PCA plot.
- Gene selection with more than a few thousand genes no longer hangs the application. This is achieved through a different selection input in the corresponding
geneSpec
shiny module. - Only atomic columns of
colData
with at least one value can now be selected in thesampleVarSpecModule
.
teal.modules.hermes 0.1.0
- First release of the
teal.modules.hermes
package, which contains teal modules for RNA-seq analysis using thehermes
package. - New users should first begin by reading the
README.md
of theteal.modules.hermes
package to become familiar.
New Features
-
tm_g_barplot
is a barplot module for RNA-seq gene expression analysis. -
tm_g_boxplot
is a boxplot module for RNA-seq gene expression analysis. -
tm_g_forest_tte
is a survival forest plot module to analyze RNA-seq gene expression data together with survival data. -
tm_g_km
is aKaplan-Meier
plot module to analyze RNA-seq gene expression data together with survival data. -
tm_g_pca
is a principal components analysis plot module for RNA-seq gene expression analysis. -
tm_g_quality
is a quality control module for RNA-seq gene expression data. -
tm_g_scatterplot
is a scatterplot module for RNA-seq gene expression analysis. -
tm_g_volcanoplot
is a differential gene expression analysis module.