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Update README.md
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lucacozzuto authored Dec 2, 2024
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Expand Up @@ -30,29 +30,9 @@ Please install nextflow and singularity or docker before.
Then download the repo:

```
git clone --depth 1 --recurse-submodules https://github.com/biocorecrg/MOP4.git
git clone --recurse-submodules https://github.com/biocorecrg/master_of_pores.git
```

You can use INSTALL.sh to download the version 3.4.5 of guppy or you can replace it with the version you prefer. Please consider that the support of VBZ compression of fast5 started with version 3.4.X.

```
cd MOP4; sh INSTALL.sh
```

## Testing
You can replace ```-with-singularity``` with ```-with-docker``` if you want to use the docker engine.

```
cd mop_preprocess
nextflow run mop_preprocess.nf -with-singularity -bg -profile local -params-file params.yaml > log
```

## Upgrading
To upgrade the tool you can type:

```
git pull --recurse-submodules
```

## Documentation
The documentation is available at [https://biocorecrg.github.io/MOP4/](https://biocorecrg.github.io/MOP4/)
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