62 lines
1.9 KiB
Markdown
62 lines
1.9 KiB
Markdown
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---
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layout: page
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title: Download
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permalink: /download/
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order: 5
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share: false
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---
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Please cite:
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>Kim, D., Paggi, J.M., Park, C. _et al._ Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype. _Nat Biotechnol_ **37**, 907–915 (2019). <https://doi.org/10.1038/s41587-019-0201-4>
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- TOC
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{:toc}
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## Index
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HISAT2 indexes are hosted on AWS (Amazon Web Services), thanks to the AWS Public Datasets program. Click this [link](https://registry.opendata.aws/jhu-indexes/) for more details.
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{% for item in site.data.download-index %}
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### {{ item.organism }}
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{% for data in item.data %}
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<li>{{ data[0] }}</li>
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<table style="border-collapse: collapse; border: none;">
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{% for genome in data[1] %}
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<tr style="border: none;"><td style="border: none;">{{ genome[0] }}</td>
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<td style="border: none;">
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{% for url in genome[1] %}
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<a href="{{ url[1] }}">{{ url[1] }}</a><br/>
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{% endfor %}
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</td>
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</tr>
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{% endfor %}
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</table>
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{% endfor %}
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{% endfor %}
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genome: HISAT2 index for reference
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genome_snp: HISAT2 Graph index for reference plus SNPs
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genome_tran: HISAT2 Graph index for reference plus transcripts
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genome_snp_tran: HISAT2 Graph index for reference plus SNPs and transcripts
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## Binaries
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{: binaries }
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{% assign targets = site.data.download-binary.latest_version | split: "," %}
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{% for release in site.data.download-binary.release %}
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{% assign version = release['version'] %}
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{% if targets contains version or targets == null %}
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{% assign name = release['name'] %}
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### Version: {{name}} {{version}}
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<table style="border-collapse: collapse; border: none;">
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<tr style="border: none;"><td style="border: none;" colspan="2"><b>Release Date</b>: {{release['date']}}</td></tr>
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{% for artifact in release['artifacts'] %}
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{% assign type = artifact[0] %}
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<tr style="border: none;"><td style="border: none;">{{type}}</td><td style="border: none;"><a href="{{artifact[1]}}">{{artifact[1]}}</a></td></tr>
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{% endfor %}
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</table>
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{% endif %}
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{% endfor %}
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