diff --git a/README.md b/README.md index 06ee7742..9e8a1274 100644 --- a/README.md +++ b/README.md @@ -53,34 +53,6 @@ curl http://localhost:8000/api/v1/tileset_info/?d=hitile-demo curl http://localhost:8000/api/v1/tiles/?d=hitile-demo.0.0.0 ``` -## Preparing files for ingest - -Genomics data needs to be aggregated across a range of scales before it can be used with HiGlass. - -### Cooler files - -**TODO**: Is this still accurate? - -[Cooler](https://github.com/mirnylab/cooler) files store Hi-C data. They need to be decorated with aggregated -data at multiple resolutions in order to work with `higlass-server`. This is easily accomplished by simply -installing the `cooler` python package and running the `recursive_agg_onefile.py` script. For now this has -to come from a clone of the official cooler repository, but this will hopefully be merged into the main branch shortly. - -``` - -git clone -b develop https://github.com/pkerpedjiev/cooler.git -cd cooler -python setup.py install - -recursive_agg_onefile.py file.cooler --out output.cooler -``` - -### BigWig files - -BigWig files can be aggregated with the [Clodius](https://github.com/hms-dbmi/clodius#bigwig-files). - -### **TODO**: Any other types? - --- ## Development @@ -116,3 +88,7 @@ bumpversion patch ## Troubleshooting **pybbi installation fails on macOS**: Check out https://github.com/nvictus/pybbi/issues/2 + +## License + +The code in this repository is provided under the MIT License.