https://github.com/arsho/kmpen
KMPen is a visualization tool to create Kaplan Meier survival graph.
https://github.com/arsho/kmpen
Last synced: about 2 months ago
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KMPen is a visualization tool to create Kaplan Meier survival graph.
- Host: GitHub
- URL: https://github.com/arsho/kmpen
- Owner: arsho
- Created: 2021-12-15T00:28:03.000Z (over 4 years ago)
- Default Branch: main
- Last Pushed: 2022-02-16T03:47:48.000Z (over 4 years ago)
- Last Synced: 2025-10-20T02:58:18.506Z (9 months ago)
- Language: JavaScript
- Size: 4.01 MB
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: readme.md
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README
# Kaplan Meier Graph
KMPen is a visualization tool to create Kaplan Meier survival probability graph.
### Features
#### Clean:
- No dependency on Bootstrap.
- Create KM survival probability graph for each group.
- Read fixed text datafiles and extract data based on them.
- Read p value from text datafiles.
- Start probability from 1.
- Export graph as PNG, JPG, and PDF format.
#### KIRC:
- Separate dataset into groups.
- Create KM survival probability graph for each group.
- Read fixed text datafiles and extract data based on them.
- The project can extract columns and rows.
- Export graph as PNG, JPG, and PDF format.
#### Basic:
- Create Kaplan-Meier survival probability graph based on dataset mentioned in paper [Understanding survival analysis: Kaplan-Meier estimate](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3059453/).
- The project can create random dataset and generate Kaplan-Meier survival graph based on the dataset.
- Download graph as PNG, JPG, and PDF format.
- Responsive graph
### Demo (Clean)
- Graph with p_value
### Demo (KIRC)
- Graph with data
- Effect of A1BG expression level & race on KIRC patient survival dataset
- Effect of A1BG expression level & gender on KIRC patient survival dataset
### Demo (Basic)
- Graph with data
- Data
- Kaplan Meier Survival Probability Graph
### Library used
- jQuery: Version 3.6.0.min
- ChartJS: Version 3.6.2
- Datatable: Version 1.11.3
- jsPDF: Version 1.3.2
- Bootstrap: Version 5.1.3
- Bootstrap Icons: Version 1.5.0
## ToDo
- Add convert to SVG button. Tutorial can be found in [Canvas to SVG](https://editor.p5js.org/jeffThompson/sketches/9UBWBj32R).
- Fix chart in small screen (mobile)
## Support
Please [open an issue](https://github.com/arsho/kmpen/issues/new) for support.
## Contributing
Please contribute using [Github Flow](https://guides.github.com/introduction/flow/). Create a branch, add commits, and [open a pull request](https://github.com/arsho/kids_math/compare/).
### Git methods
- Create new branch:
```
git fetch origin
git checkout master
git reset --hard origin/master
git checkout -b BRANCH_NAME
```
- To check local changes:
```
git status -s
```
- Commit changes:
```
git add --all
git commit -m "Issue:Issue_Number message"
git push origin BRANCH_NAME
```
- To fetch from upstream repository:
```
git fetch origin
```
- To reset local files to upstream repository `main` branch after fetching the changes:
```
git reset --hard origin/main
```
### Resources
- [Understanding survival analysis: Kaplan-Meier estimate](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3059453/)
- [A PRACTICAL GUIDE TO UNDERSTANDING KAPLAN-MEIER CURVES](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3932959/)
- [Chartjs line chart documentation](https://www.chartjs.org/docs/3.6.2/charts/line.html)
- [Chartjs graph export](https://www.chartjs.org/docs/3.6.2/developers/api.html#tobase64image-type-quality)
- [JSPDF documentation](https://github.com/matb/jsPDF)
- [Chartjs canvas background](https://www.chartjs.org/docs/3.6.2/configuration/canvas-background.html)
- [Kaplan Meier graph example](https://canvasxpress.org/examples/kaplan-meier-1.html)
- [Remove some points in line chart chartjs - Javascript Chart.js](http://www.java2s.com/example/javascript/chart.js/remove-some-points-in-line-chart-chartjs.html)
- [Current demo](http://ualcan.path.uab.edu/cgi-bin/TCGA-survival1.pl?genenam=A1BG&ctype=KIRC)