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Provide conda/brew instructions, but don't encourage it
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tseemann authored Nov 6, 2019
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Expand Up @@ -11,7 +11,11 @@ Canu is a hierarchical assembly pipeline which runs in four steps:

## Install:

* The easiest way to get started is to download a [release](http://github.com/marbl/canu/releases). Installing with a 'package manager' is not encouraged.
* The easiest way to get started is to download a binary [release](http://github.com/marbl/canu/releases).

* Installing with a 'package manager' is not encouraged, but if you have no other choice:
* Conda: `conda install -c conda-forge -c bioconda -c defaults canu`
* Homebrew: `brew install brewsci/bio/canu`

* Alternatively, you can use the latest unreleased version from the source code. This version has not undergone the same testing as a release and so may have unknown bugs or issues generating sub-optimal assemblies. We recommend the release version for most users.

Expand All @@ -36,4 +40,4 @@ Full list of parameters:
../<architecture>/bin/canu -options

## Citation:
- Koren S, Walenz BP, Berlin K, Miller JR, Phillippy AM. [Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation](https://doi.org/10.1101/gr.215087.116). Genome Research. (2017).
- Koren S, Walenz BP, Berlin K, Miller JR, Phillippy AM. [Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation](https://doi.org/10.1101/gr.215087.116). Genome Research. (2017). `doi:10.1101/gr.215087.116`

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