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saezlab
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MetaProViz
R-package to perform metabolomics pre-processing, differential metabolite analysis, metabolite clustering and custom visualisations.
https://saezlab.github.io/MetaProViz/
GNU General Public License v3.0
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roomba package not available for R version R4.4.1 --> change from roomba::replace_null() to base R functions for this step
#81
ChristinaSchmidt1
opened
1 week ago
0
ggplot2 version newer than 3.4.4. gives error from PlotGrob helper functions
#80
ChristinaSchmidt1
opened
2 weeks ago
1
Development
#79
ChristinaSchmidt1
closed
1 month ago
0
Development2
#78
ChristinaSchmidt1
closed
3 months ago
0
MetaProViz::ORA() - Create Helper function for Fishers Exact test.
#77
ChristinaSchmidt1
opened
6 months ago
0
Using DMA function on data in natural log scale
#76
nikvan
closed
5 months ago
8
Pool Estimation - Zero variance metabolites
#75
dprymidis
opened
8 months ago
7
Fetch error Shapiro test
#74
ChristinaSchmidt1
closed
6 months ago
1
DMA - shapiro.test sample size
#73
LampatLex
closed
8 months ago
6
Package load and dependencies installation
#72
dprymidis
closed
2 months ago
7
MetaProViz::DMA - Add checks for variance assumptions
#71
ChristinaSchmidt1
closed
9 months ago
2
Enable the usability with SummarizedExperiment for all the functions.
#70
ChristinaSchmidt1
opened
9 months ago
0
VizLollipop - Finish this
#69
ChristinaSchmidt1
opened
10 months ago
0
MetaProViz::VizAlluvial - Change this to ggplot and make publication ready format
#68
ChristinaSchmidt1
opened
10 months ago
0
Functional analysis: Add MCA function to make cluster column for one dataset
#67
ChristinaSchmidt1
opened
10 months ago
1
Viz functions: Export two plot lists
#66
ChristinaSchmidt1
closed
6 months ago
2
We need to enable the user to give us an Folder_Name in all functions.
#65
ChristinaSchmidt1
closed
10 months ago
0
ORA - metabolite selection: warning()
#64
dprymidis
closed
10 months ago
6
MetaProViz::Pool_Estimation - Data normality
#63
ChristinaSchmidt1
opened
10 months ago
5
Viz functions check pallette
#62
ChristinaSchmidt1
opened
11 months ago
0
MetaProViz::Preprocessing QC plots
#61
ChristinaSchmidt1
closed
10 months ago
4
MetaProViz::Pool_Estimation - Add QC plots and invisible assign
#60
ChristinaSchmidt1
closed
10 months ago
13
Functional analysis: Add ocean
#59
ChristinaSchmidt1
opened
11 months ago
0
VizModule: retrun plotlist to environment=TRUE/FALSE
#58
ChristinaSchmidt1
closed
11 months ago
1
Use VizFunctions to generate the QC plots
#57
ChristinaSchmidt1
closed
11 months ago
2
VizVolcano: potnetial issue with duplicated names?
#56
ChristinaSchmidt1
closed
11 months ago
1
VizModule: If individual=TRUE enable patchwork::wrap_plots
#55
ChristinaSchmidt1
closed
11 months ago
1
Enable save_as =NULL and add dpi in ggsave
#54
ChristinaSchmidt1
closed
11 months ago
2
VizPCA: parameter check
#53
ChristinaSchmidt1
closed
11 months ago
1
Functional analysis: PCA-Metadata analysis
#52
ChristinaSchmidt1
opened
11 months ago
0
VizVolcano: Add parameter select label/ no labels
#51
ChristinaSchmidt1
closed
11 months ago
1
pheatmap: If other features are needed check complexheatmap
#50
ChristinaSchmidt1
closed
11 months ago
2
Error in VizLolipop
#49
ChristinaSchmidt1
closed
1 year ago
2
Invisible return in all functions instead of assign and saving of Plot list
#48
ChristinaSchmidt1
closed
10 months ago
9
Preprocessing Syntax
#47
dprymidis
closed
11 months ago
4
proDA in MVI or DMA (DMA- missing values)
#46
ChristinaSchmidt1
closed
10 months ago
2
DMA- multiple testing
#45
ChristinaSchmidt1
closed
9 months ago
27
CoRe=TRUE, some changes required
#44
ChristinaSchmidt1
closed
1 year ago
2
VizHeatmap: Object 'col_annot' not found
#43
LiaoQianWu
closed
1 year ago
4
VizBox/Violin/Bar/plot incorrect group selection
#42
dprymidis
closed
1 year ago
1
Check installation of package dependences
#41
dprymidis
closed
10 months ago
6
Viz module: save plots in publication ready format
#40
ChristinaSchmidt1
closed
11 months ago
6
VizVolcano - PieChart legend
#39
ChristinaSchmidt1
closed
11 months ago
3
VizPCA: add parameter for color scale (discrete or continuos)
#38
ChristinaSchmidt1
closed
11 months ago
1
VizLollipop - some final enhancements
#37
dprymidis
closed
1 year ago
20
Load_Kegg function: Cache the results
#36
ChristinaSchmidt1
closed
9 months ago
2
Update Hexagon
#35
ChristinaSchmidt1
closed
1 year ago
0
ORA (Pathway analysis)
#34
ChristinaSchmidt1
closed
1 year ago
2
enable Github actions
#33
ChristinaSchmidt1
closed
11 months ago
3
Create: unit testing
#32
ChristinaSchmidt1
opened
1 year ago
0
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