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Detailing how to install quatradis using bioconda
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sbastkowski committed Oct 22, 2023
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Expand Up @@ -133,12 +133,18 @@ sudo apt install r-base

Before installing QuaTraDIS via conda, first [install conda](https://docs.conda.io/projects/conda/en/latest/user-guide/install/linux.html)
and enable the bioconda channel as described [here](https://bioconda.github.io/). After which if you
don't have mamba installed then we recommend you do this to make the installation process much faster.
don't have mamba installed then we recommend you do this to make the installation process much faster.
We also recommend using a virtual environment with python pinned to 3.10.
Rough steps are described here (adapt as needed for your system):

```bash
# We assume you already have conda installed with bioconda channel setup. See comments above for details.

# Create a virtual environment for quatradis and activate it. You'll need to reactivate it in every session
# in which you wish to use quatradis.
conda create -n "quatradis" python=3.10-9
conda activate quatradis

# Install mamba if you haven't already
conda install -c conda-forge mamba

Expand Down Expand Up @@ -382,4 +388,4 @@ QuaTraDIS is built on top of the work done in BioTraDIS and AlbaTraDIS:

## Citation

The QuaTraDIS academic paper is currently work in progress. For now please cite the references above.
The QuaTraDIS academic paper is currently work in progress. For now please cite the references above.

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