saezlab / MetaProViz

R-package to perform metabolomics pre-processing, differential metabolite analysis, metabolite clustering and custom visualisations.

https://saezlab.github.io/MetaProViz/

saezlab/MetaProViz Issues

MetaProViz::ORA() - Create Helper function for Fishers Exact test.
Updated 4 months ago
Using DMA function on data in natural log scale
Closed 4 months ago8
Pool Estimation - Zero variance metabolites
Updated 4 months ago6
Fetch error Shapiro test
Closed 4 months ago1
DMA - shapiro.test sample size
Closed 6 months ago6
Package load and dependencies installation
Closed 13 days ago7
MetaProViz::DMA - Add checks for variance assumptions
Closed 7 months ago2
Enable the usability with SummarizedExperiment for all the functions.
Updated 7 months ago
VizLollipop - Finish this
Updated 7 months ago
MetaProViz::VizAlluvial - Change this to ggplot and make publication ready format
Updated 6 months ago
Functional analysis: Add MCA function to make cluster column for one dataset
Updated 4 months ago1
Viz functions: Export two plot lists
Closed 4 months ago2
We need to enable the user to give us an Folder_Name in all functions.
Closed 8 months ago
ORA - metabolite selection: warning()
Closed 8 months ago6
MetaProViz::Pool_Estimation - Data normality
Updated 4 months ago5
Viz functions check pallette
Updated 8 months ago
MetaProViz::Preprocessing QC plots
Closed 8 months ago4
MetaProViz::Pool_Estimation - Add QC plots and invisible assign
Closed 8 months ago13
Functional analysis: Add ocean
Updated 8 months ago
VizModule: retrun plotlist to environment=TRUE/FALSE
Closed 9 months ago1
Use VizFunctions to generate the QC plots
Closed 9 months ago2
VizVolcano: potnetial issue with duplicated names?
Closed 9 months ago1
VizModule: If individual=TRUE enable patchwork::wrap_plots
Closed 9 months ago1
Enable save_as =NULL and add dpi in ggsave
Closed 9 months ago2
VizPCA: parameter check
Closed 9 months ago1
Functional analysis: PCA-Metadata analysis
Updated 8 months ago
VizVolcano: Add parameter select label/ no labels
Closed 9 months ago1
pheatmap: If other features are needed check complexheatmap
Closed 9 months ago2
Error in VizLolipop
Closed 10 months ago2
Invisible return in all functions instead of assign and saving of Plot list
Closed 8 months ago9
Preprocessing Syntax
Closed 9 months ago4
proDA in MVI or DMA (DMA- missing values)
Closed 8 months ago2
DMA- multiple testing
Closed 7 months ago27
CoRe=TRUE, some changes required
Closed 10 months ago2
VizHeatmap: Object 'col_annot' not found
Closed 10 months ago4
VizBox/Violin/Bar/plot incorrect group selection
Closed 10 months ago1
Check installation of package dependences
Closed 8 months ago6
Viz module: save plots in publication ready format
Closed 9 months ago6
VizVolcano - PieChart legend
Closed 9 months ago3
VizPCA: add parameter for color scale (discrete or continuos)
Closed 9 months ago1
VizLollipop - some final enhancements
Closed 10 months ago20
Load_Kegg function: Cache the results
Closed 7 months ago2
Update Hexagon
Closed a year ago
ORA (Pathway analysis)
Closed 10 months ago2
enable Github actions
Closed 9 months ago3
Create: unit testing
Updated 8 months ago
Visualisation - colour/plots for pathways
Closed 10 months ago3
Viz: Merge Bar/Violin/box plots and superplots
Closed 4 months ago18
MCA - Nomeclature
Closed a year ago
Functional analysis: MCA - add distance method
Updated 8 months ago2