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vasicek58 authored Feb 15, 2024
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### Example: ProHap on 1000 Genomes
In the first usage example, we provide a small example dataset taken from the 1000 Genomes Project on GRCh38. We will ProHap to create a database of protein haplotypes aligned with Ensembl v.111 (January 2024).

This example was tested with Ubuntu 22.04.3 LTS. Windows users are encouraged to use the [Windows Subsystem for Linux](https://ubuntu.com/desktop/wsl) to run the ProHap / ProVar pipeline.
This example was tested with Ubuntu 22.04.3 LTS. Windows users are encouraged to use the [Windows Subsystem for Linux](https://ubuntu.com/desktop/wsl). Expected runtime using 4 CPU cores: ~20 hours. Expected runtime using 40 CPU cores: ~4 hours.

Requirements: Install Conda / Mamba and Snakemake using [this guide](https://snakemake.readthedocs.io/en/stable/getting_started/installation.html#installation-via-conda-mamba). Hardware requirements: 4 CPU cores, ~5 GB disk space, < 5 GB RAM.
Requirements: Install Conda / Mamba and Snakemake using [this guide](https://snakemake.readthedocs.io/en/stable/getting_started/installation.html#installation-via-conda-mamba). Minimum hardware requirements: 4 CPU cores, ~5 GB disk space, 5 GB RAM.

Use the following commands to run this example:

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