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Add ingest tutorials #195

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merged 9 commits into from
Apr 3, 2024
Merged

Add ingest tutorials #195

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0d7d415
Add tutorial/running-an-ingest-workflow
joverlee521 Mar 19, 2024
ce41d28
tutorial: Add "Using a pathogen repo" section
joverlee521 Mar 22, 2024
703f35b
tutorial: Add "Creating a pathogen repo" section
joverlee521 Mar 22, 2024
5e417b8
Add creating-an-ingest-workflow tutorial
joverlee521 Mar 22, 2024
00ee4a5
uncurated-ncib-dataset: Separate commands to give explanation
joverlee521 Mar 22, 2024
43b0f77
creating-an-ingest-workflow: use `dump_ncbi_dataset_report`
joverlee521 Mar 29, 2024
6019d50
Remove snippets/uncurated-ncbi-dataset.rst
joverlee521 Mar 29, 2024
f021e76
ingest tutorials: Update "Next steps"
joverlee521 Mar 29, 2024
9255b1a
running-an-ingest-workflow: Replace big YAML block
joverlee521 Mar 29, 2024
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2 changes: 2 additions & 0 deletions src/index.rst
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Expand Up @@ -58,6 +58,8 @@ team and other Nextstrain users provide assistance. For private inquiries,
tutorials/creating-a-bacterial-phylogenetic-workflow
tutorials/narratives-how-to-write
Analyzing genomes with Nextclade <https://docs.nextstrain.org/projects/nextclade/page/user/nextclade-web/index.html>
tutorials/using-a-pathogen-repo/index
tutorials/creating-a-pathogen-repo/index

.. toctree::
:maxdepth: 1
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