- feat: clear info symbols view
- feat: clean info symbols view
- upload_module_outliers.R: added playbase::counts.mergeDuplicateFeatures taking into account presence/absence of NA values. view
- feat: disable qc/bc plot maximization view
- upload_module_outliers.R: fix dim(counts) != dim(X) with playbase::counts.mergeDuplicateFeatures view
- feat: move qc/bc UI to server view
- added user input box to treat xxl features as NAs view
- feat: working settings download view
- feat: move sett to ui-utils view
- feat: left align, all col rename view
- feat: control popover width view
- feat: save global params view
- feat: get metadata table view
- feat: copy button + references on info box view
- feat: add tick when copy text view
- feat: cog as other elements view
- feat: heatmap no cexCol=0 with >100 samples view
- feat: info on second column view
- feat: info second col view
- feat: transparent info buttons view
- feat: checkbox for plot settings in pdf view
- feat: move choices to ui builder view
- feat: new datatype translator view
- feat: tranlator dictionary view
- feat: use textare view
- feat: dataview proteomics translations view
- feat: update choices view
- feat: collapse vectors view
- feat: adjust pdf settings height view
- feat: update pdf settings height view
- feat: update settings pdf height view
- feat: update settings pdf height view
- feat: clustering and expression settings calendar view
- feat: settings pdf bigger width view
- feat: no parent inputs + new cluster dictionary entries view
- feat: new info structure view
- feat: use external link button instead of info view
- feat: disable settings on pca/tsne view
- feat: hide
s on tab change view - feat: pheno distribution info view
- feat: compare datasets compute button view
- feat: save lower datatype view
- feat: dataview plot labels for proteomics view
- feat: more translation for dataview view
- feat: upload tranlation and defaults for proteomics view
- docs: featuremap info buttons view
- docs: missing arguments on featuremap view
- feat: rename abundance/counts.csv view
- Rename axes and titles in Cluster samples and Cluster feature tabs view
- Move feature outliers box into Step 3 view
- Move feature outliers box into Step 3 view
- Fix Biomarkes - Feature-set Ranking plot for Proteomics view
- feat: use correct font on plotly hover tooltip view
- feat: prefix gene symbol for selectInput if feature is not symbol view
- feature: fix crash and allow multiple csv files at upload view
- feat: enables upload of paramsRData file for debugging view
- Add feature_name in gene_info box view
- feat: count total comparisons from FC file view
- fix plots for compound feature names view
- fix feature-UMAP for duplicated symbols && simplify code and options view
- Fix DGE table for top10 up/down features; Remove option to show inidivual qvalues view
- Fix DGE table for top10 up/down features view
- feat: label by symbol view
- fix/feat: select label type on volcano plots as feature or symbol view
- Fix Feature table in cluster genes view
- feat: probe filter defaults for proteomics view
- feat: use YAML file for defaults view
- feat: DEFAULTS.yml view
- fix for "unused arguments (features = df$pathway, showscale = TRUE)" view
- Rename Probe filtering to Feature Filtering view
- fix for
length of 'dimnames' [1] not equal to array extentin biomarker/featurerank biomarker view - fix issue with connectivityBoard to work with non-gene features as in PTM proteomics view
- Allow custom annotation columns in the counts.csv file which can be shown in the DataView/DataTable with a checkbox 'show full table'. This allows users to add extra feature annotation columns. Any columns that overlap with OPG will overwrite our annotation so in principle this can be used for custom annotation of non-supported organisms, or if users want to use a specific annotation view
- feat: install quarto for current cpu architecture view
- feat: translate methods text view
- small adjustments to featuremap info texts view
- fix feature-set ranking plot view
- feat: metabolite defaults for testgeneset view
- remove gene_names and pass feature view
- feat: updated plotmodule cards view
- volcano plot prototype with feature names as labels view
- refactor MA plot to allow labels to be feature names view
- feat: static volcano plots view
- feat: download tables options: csv/excel view
- feat: expression board now works entirely on rownames (instead of symbol/feature) view
- feat: add excel download to plotmodule view
- feat: multivolcano expression 2 static view
- Fix show of top10 up/down features if less than 20 features are available view
- Fix show of top10 up/down features if less than 10 features are available view
- add option to display clustered heatmap with feature, symbol or name view
- fix 898 where custom features are not in rownames view
- feat: hubspot check view
- feat: move hubspot check to a function view
- Revert "feat: hubspot data check" view
- feat: place connector on outside repo/folder view
- feat: add JS option to tablemodule view
- feat: add autoclose to cog dropdown view
- feat: cog menu remove weird artifacts view
- add
labeltypeswitch in dataviewsearch_geneselector; clean up features definition based on data type (needs review) view - feat: dockerfile update, add flags view
- feat: capture error message next to traceback view
- feat: no title on ggplot volcano plots view
- feat: grab tab/general settings view
- feat: gtest defaults proteomics/others view
- Barplot of number of detected feature per sample view
- feat: avoid logging repeating errors view
- feat: new error message view
- fix: feature umap labels view
- feat: correlation analysis use labeltype view
- feat: compare plots labeltype view
- feat: compare fc plots labeltype view
- feat: detect brush for gene umap view
- feat: bring back phenotypes umap view
- feat: move wizard to server view
- feat: add req for data change view
- feat: normalization defaults for proteomics view
- feat: re-inforce cookie checks view
- feat: add req to avoid error on dataset change view
- feat: validate number of samples view
- feat: disable cmap for metabolomics view
- feat: just check error message for duplicates view
- feat: bring back bin update for cytometry plot view
- feat: remove server view
- feat: just update pmarkers when needed view
- feat: turn is_compute false on dataset change view
- feat: display intial board state on dataset change view
- feat: use same matrix that will be subseted view
- feat: specify library view
- feat: handle no HO case view
- feat: control samples/counts no match for umap plot view
- Update featuremap_plot_table_gene_map.R view
- feat: add validator view
- feat: add req view
- feat: make sure row is selected view
- feat: use samples tables instead of Y view
- feat: add req view
- feat: save raw_dir to error ticket view
- feat: raw_dir global to access it on error handle view
- feat: make sure raw_dir is initiated view
- feat: add raw dir view
- feat: handle single k case view
- feat: add validator on cluster heatmap view
- feat: labeltype to average rank plot view
- feat: remove source from labeltypes view
- feat: add path to cookies view
- feat: save table on upload view
- feat: match on symbol, not gene_name view
- feat: bring back
<all>if no other option available view - feat: validate and inform user view