DGrowthR-App: Statistical end-to-end analysis of large-scale microbial growth data
Authors/Creators
-
1.
Helmholtz Munich
-
2.
Ludwig-Maximilians-Universität München
Description
DGrowthR-App
A standalone application for the integrative analysis of large growth experiments. DGrowthR-App comprises methods for data pre-processing and standardization, exploratory functional data analysis, and non-parametric modeling of growth curves using Gaussian Process regression. Importantly, DGrowthR-App includes a rigorous statistical testing framework for differential growth analysis.
This download provides the standalone application for Apple Mac (Intel and Arm) and Windows platforms.
Data Format: DGrowthR-App accepts input data in a specific format. Here's an example of OD measurement data:
| Time | dCBASS_1_OD_A1 | dCBASS_1_OD_A2 | dCBASS_1_OD_A3 |
|---|---|---|---|
| 0 | 0.05 | 0.03 | 0.3 |
| 1 | 0.1 | 0.05 | 0.4 |
| 2 | 0.2 | 0.08 | 0.5 |
Metadata Format: The application also requires metadata in the following format:
| curve_id | genotype_well | well | plate_name | file_id | genotype | Rep_Nr | Drug | ConcMock |
|---|---|---|---|---|---|---|---|---|
| dCBASS_1_OD_A1 | dCBASS_A1 | A1 | dCBASS_1_OD | dCBASS_1_OD.txt | dCBASS | 1 | 2,3-DHBA | 1 |
| dCBASS_1_OD_A2 | dCBASS_A2 | A2 | dCBASS_1_OD | dCBASS_1_OD.txt | dCBASS | 1 | 2,3-DHBA | 2 |
| dCBASS_1_OD_A3 | dCBASS_A3 | A3 | dCBASS_1_OD | dCBASS_1_OD.txt | dCBASS | 1 | 4-aminosalicylic acid | 1 |
Privacy Note: Using this download, you don't have to upload your data anywhere. You can use the software on your computer locally, ensuring your research data remains completely private and secure.
For the complete R package and documentation, please visit:
Files
Apple.zip
Files
(630.1 MB)
| Name | Size | Download all |
|---|---|---|
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md5:ca360c8da545d4eacb8278c75311c675
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395.1 MB | Preview Download |
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md5:5ad6a4a3747a41a7a2d44cb4816eff73
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235.0 MB | Preview Download |
Additional details
Additional titles
- Alternative title
- DGrowthR-App
Software
- Repository URL
- https://github.com/bio-datascience/DGrowthR
- Programming language
- R
- Development Status
- Active