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Improve the README.md
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AlbertRockG committed Nov 7, 2023
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Expand Up @@ -27,12 +27,16 @@ Before using this pipeline, you need to setup the required environment by instal

### Run fast5pipeline

To run this pipeline, kindly follow this instructions:
To run this pipeline, kindly follow this instructions from your terminal:

```bash
# To get the pipeline source code on your laptop
git clone https://github.com/AlbertRockG/fast5toGenome

# To add fast5pipeline to the PATH
cd fast5Genome/
export PATH="$PWD/fast5Genome:$PATH"
export PATH="$PWD:$PATH"

# To activate the medaka environment, if using conda
conda activate medaka

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