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Update README.md with new wtc11 data directory
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kairukuma authored Apr 8, 2024
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Expand Up @@ -88,7 +88,7 @@ From scratch, scGHOST takes about 2 hours to run on the sciHi-C GM12878 dataset

## Tutorials

Please follow our tutorial notebooks in the root directory for examples on how to run scGHOST with and without first running Higashi. For a sample run of scGHOST, users can download the smaller WTC-11 dataset [here](https://cmu.box.com/s/lk51skm65hdmp54tlwskd3vo5tk0db2p) then extract the zip file to any directory. After downloading the sample data, please change the `sample_configs/config_wtc.json` configuration file accordingly to point to the correct paths and run the following command:
Please follow our tutorial notebooks in the root directory for examples on how to run scGHOST with and without first running Higashi. For a sample run of scGHOST, users can download the smaller WTC-11 dataset [here](http://genome.compbio.cs.cmu.edu:8008/~kxiong/data/scghost/wtc11/). After downloading the sample data, please change the `sample_configs/config_wtc.json` configuration file accordingly to point to the correct paths and run the following command:

`python scghost.py --config sample_configs/config_wtc.json`

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