Merge pull request #66 from GMOD/comparison

Adds a comparison table for JBrowse Jupyter features

README.md

@@ -268,6 +268,34 @@ if __name__ == "__main__":
 - For example: the url to the data you wish to pass to the JBrowse view config for the local dev server running on port 8080 on local host will look like this "http://localhost:8080/<your-file-name>"
 e.g `jbrowse_conf.add_track("http://localhost:8080/<your-file-name>", name="test-demo")`
 
+## JBrowse Jupyter vs Other tools
+
+| Features        | JBrowse/ JBrowse Jupyter | IGV.js /igv-notebook | ipyIgv | Gosling/Gos | D3GB | PygBrowse | Mango |
+| --------------- | ----------------   | ------------------   |  ----  | ----------- | ---- | --------- | ----  |
+| Binder support            | :heavy_check_mark: | :heavy_check_mark:   | :heavy_check_mark: | :heavy_check_mark: | :x:  | :x: | :x: |
+| Colab  support            | :heavy_check_mark: | :heavy_check_mark:   | :x: | :heavy_check_mark: | :x: | :x: | :x: |
+| Custom Color Theming      | :heavy_check_mark: | :x:                  | :x:                | :heavy_check_mark: | :x: | :x: | :x: |
+| Deletion of tracks        | :heavy_check_mark: | :x:                  | :heavy_check_mark: | :x: | :x: | :x: | :x: |
+| Export view as SVG        | :heavy_check_mark: &ast; | :heavy_check_mark:   | :heavy_check_mark:| :x: | :x: | :x: | :heavy_check_mark:|
+| Local file support        | :heavy_check_mark: | :heavy_check_mark:   | :heavy_check_mark: | :heavy_check_mark:| :heavy_check_mark: | :heavy_check_mark: | :heavy_check_mark: |
+| Supports Circular Genome View | :heavy_check_mark: | :x: | :x: | :heavy_check_mark: | :x: | :x: | :x: |
+| Ability to enable text searching from indexed files | :heavy_check_mark: | :x: | :x: | :x: | :x: | :x: | :x: |
+| Ability to add tracks from Dataframes  | :heavy_check_mark: | :x: | :x: | :x: | :x: | :heavy_check_mark: | :x:| 
+| Zooming in on regions of interest | :heavy_check_mark: &ast; | :heavy_check_mark:  | :heavy_check_mark: &ast;| :heavy_check_mark: &ast; | :heavy_check_mark: &ast;| :x: | :heavy_check_mark: &ast; |
+
+&ast; Feature is accessible via the component's UI and not by API.
+
+* For more features of the JBrowse and JBrowse embedded components checkout 
+[our documentation](https://jbrowse.org/jb2/docs/embedded_components/)
+* Igv.js [documentation](https://github.com/igvteam/igv.js/wiki/) 
+* igv-notebook [documentation](https://github.com/igvteam/igv-notebook)
+* ipyIgv [documentation](https://github.com/QuantStack/ipyigv)
+* D3GB [documentation](http://d3gb.usal.es/index.html)
+* PygBrowse [documentation](https://github.com/phageghost/python-genome-browser)
+* Gosling [documentaiton](https://github.com/gosling-lang/gosling.js)
+* Gos [documentation](https://gosling-lang.github.io/gos/)
+* Mango [documentation](https://bdg-mango.readthedocs.io/en/latest/jupyterWidgets/usage.html)
+
 ## Resources
 * [JBrowse](https://jbrowse.org/jb2/) - the next generation genome browser
 * [JBrowse React Linear Genome View](https://www.npmjs.com/package/@jbrowse/react-linear-genome-view) - interactive genome browser

browser.py

@@ -28,7 +28,9 @@
               "GRCh38/ncbi_refseq/GCA_000001405.15_GRCh38_full" \
               "_analysis_set.refseq_annotation.sorted.gff.gz"
 jbrowse_conf.add_track(track_data, name="test-demo", track_id="test-track")
-
+# deleting a track
+jbrowse_conf.add_track(track_data, name="delete", track_id="test-delete-track")
+jbrowse_conf.delete_track("test-delete-track")
 # set location
 
 jbrowse_conf.set_location("10:1..19999")