> For the complete documentation index, see [llms.txt](https://manual.microbial-genomes.org/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://manual.microbial-genomes.org/part2/requirements/conda.md).

# Using Conda

You can use [conda](https://conda.io/) to install most of the Software required by MiGA. If you don't have Conda, you can follow the [Installation instructions](https://conda.io/projects/conda/en/latest/user-guide/install/index.html).

## Live notebook

If you prefer to see code in action, the full installation process with conda is available as a [Notebook in Google Colab](https://colab.research.google.com/gist/lmrodriguezr/3fe4db8df4e5038ae603fde18214b148).

## Note for macOS users

> In general, it is recommended to use [Homebrew](/part2/requirements/brew.md) to install MiGA if possible. The MiGA installation in macOS using conda is known to be fragile and extremely time-consuming (it could take upwards of 20 minutes just solving the environment).

## Packages

Now, install all the required packages using conda:

```bash
# Install prerequisites
conda env create \
  -f "https://raw.githubusercontent.com/bio-miga/miga/main/conda.yml"

# Tell MiGA to activate the proper conda environment
echo 'eval "$(conda shell.bash hook)" && conda activate miga' > ~/.miga_modules

# Activate the environment
. ~/.miga_modules
```


---

# Agent Instructions
This documentation is published with GitBook. GitBook is the documentation platform designed so that both humans and AI agents can read, navigate, and reason over technical content effectively. Learn more at gitbook.com.

## Querying This Documentation
If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question.

Perform an HTTP GET request on the current page URL with the `ask` query parameter, and the optional `goal` query parameter:

```
GET https://manual.microbial-genomes.org/part2/requirements/conda.md?ask=<question>&goal=<endgoal>
```

`ask` is the immediate question: it should be specific, self-contained, and written in natural language.
`goal` is optional and describes the broader end goal you are ultimately trying to accomplish on behalf of the user. GitBook uses it to tailor the answer towards what is most useful for that goal.

The response will contain a direct answer to the question and relevant excerpts and sources from the documentation.

Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.