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completed bioconda instructions
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brunocontrerasmoreira committed Jan 29, 2025
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2 changes: 2 additions & 0 deletions README.md
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Expand Up @@ -186,6 +186,8 @@ Install it the [bioconda](https://anaconda.org/bioconda/get_pangenes) way:
conda activate bioconda
conda create -n get_pangenes -c conda-forge -c bioconda get_pangenes
conda activate get_pangenes
# or simply
conda install bioconda::get_pangenes

Install it the compilation way:

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9 changes: 7 additions & 2 deletions pangenes/README.md
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Expand Up @@ -33,7 +33,7 @@ and produces different types of output:
- [From pairs of genes to clusters](#from-pairs-of-genes-to-clusters)
- [Parameters](#parameters)
- [Dependencies and installation](#dependencies-and-installation)
- [Runmodes and HPC configuration](#runmodes-and-hpc-configuration)
- [Runmodes and HPC configuration](#runmodes-and-hpc-configuration)
- [Command-line options](#command-line-options)
- [Input file format](#input-file-format)
- [Example 1: default core pangene set analysis](#example-1-default-core-pangene-analysis-and-hpc-settings)
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### Dependencies and installation

To install it via [bioconda](https://anaconda.org/bioconda/get_pangenes) try:
To install it via [bioconda](https://anaconda.org/bioconda/get_pangenes) you can try:

conda activate bioconda
conda create -n get_pangenes -c conda-forge -c bioconda get_pangenes
conda activate get_pangenes

# or simply
conda install bioconda::get_pangenes

The bioconda recipe can be found [here](https://github.com/bioconda/bioconda-recipes/tree/master/recipes/get_pangenes).

Alternatively you can compile it from source, which in addition to Perl requires:

* https://github.com/lh3/minimap2
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