MetaboCrates is designed for early analysis of data obtained from Biocrates® kits. It simplifies and streamlines the data processing workflow, allowing you to efficiently analyze metabolite data. Here's a brief overview of its key features:
1. Data Import: Easily import metabolomics data generated from Biocrates® platforms.
2. Preprocessing: Perform data preprocessing tasks such as metabolites selection and <LOD imputation.
- Automatically identify and remove metabolites with a high Limit of Detection (LOD) proportion.
- Enhance the accuracy of your data by eliminating unreliable measurements.
- Complete missing data points for metabolites based on LOD values.
- Ensure that your dataset is comprehensive and suitable for analysis.
3. Quality Control: Quality control checks on your data.
4. Analysis: Calculate descriptive statistics.
5. Save your work: Save your progress, allowing you to resume your analysis at a later time.
- Track and manage multiple projects effortlessly.
- Easily share your findings with colleagues or collaborators.
Execute following commands in the R console:
devtools::install_github("BioGenies/MetaboCrates")
If you have successfully installed the package, run the GUI in your web browser using:
MetaboCrates::
- report
- fix PCA plot
- fix biplot
- logspline imputation
- all metabolites allowed on correlation heatmap
- correlation heatmap check on big screen + helper
- NA ratios plot reactive height
- !multiple grouping column!
- !group plot change!
- !group counts table!
- group levels to character
- extra space on the bottom
- colors to missing heatmap
- extra space under missing heatmap
- venn description
- download buttons !!!
- histogram change
- PCA plots and correlations heatmap to new panel
- correlations heatmap before and after imputation
- thresholds steps to 5%
- all summary info in excel
- info panel to markdown
- information to impute data to see plots
- ?adjustable correlations plot size?
- disable picking columns in tables
- new imputation panel layout
- scaled random imputation
- colored column height
- ?fix report?
- ?correct logspline imputation?
- ?legends to the top?
- downloading check !!!
- color of spinners in DT
- spinners color
- ?DT spinners color?
- buttons color
- spinners placement
- spinners delay
- plots descriptions
- handling data without missing values
- missing heatmap colors
- PCA plots for all sample types
- change descriptions appearance
- automatic imputation methods
- group PCA to another panel
- different color with different histogram type
- shorter message window when downloading
- fix removing metabolites
- tests
- unified tab layouts