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update link validation action #92

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Nov 25, 2024
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12 changes: 12 additions & 0 deletions .github/workflows/check-links-self.yaml
Original file line number Diff line number Diff line change
@@ -0,0 +1,12 @@
name: 'Check Links'
on:
workflow_dispatch:
push:
pull_request:

jobs:
link_check:
name: 'Link Check'
uses: STRIDES/NIHCloudLab/.github/workflows/check-links.yaml@main
with:
repo_link_ignore_list: ""
28 changes: 0 additions & 28 deletions .github/workflows/check_links.yml

This file was deleted.

14 changes: 14 additions & 0 deletions .github/workflows/notebook-lint-self.yaml
Original file line number Diff line number Diff line change
@@ -0,0 +1,14 @@
name: 'Lint Notebook'
on:
push:
workflow_dispatch:
permissions:
contents: write
id-token: write

jobs:
lint:
name: 'Linting'
uses: STRIDES/NIHCloudLab/.github/workflows/notebook-lint.yaml@main
with:
directory: .
3 changes: 1 addition & 2 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -60,8 +60,7 @@ Microsoft has several genomics-related offerings that will be useful to many Clo

## **Genome Wide Association Studies** <a name="gwas"></a>
Genome-wide association studies (GWAS) are large-scale investigations that analyze the genomes of many individuals to identify common genetic variants associated with traits, diseases, or other phenotypes.
- This [NIH CFDE written tutorial](https://training.nih-cfde.org/en/latest/Bioinformatic-Analyses/GWAS-in-the-cloud
) walks you through running a simple GWAS on AWS, thus we converted it to Azure in [this notebook](/notebooks/GWAS). Note that the CFDE page has a few other bioinformatics related tutorials like BLAST and Illumina read simulation.
- This [NIH CFDE written tutorial](https://training.nih-cfde.org/en/latest/Bioinformatic-Analyses/GWAS-in-the-cloud/) walks you through running a simple GWAS on AWS, thus we converted it to Azure in [this notebook](/notebooks/GWAS). Note that the CFDE page has a few other bioinformatics related tutorials like BLAST and Illumina read simulation.
- This blog post [illustrates some of the costs associated](https://techcommunity.microsoft.com/t5/azure-high-performance-computing/azure-to-accelerate-genome-wide-analysis-study/ba-p/2644120) with running GWAS on Azure

## **NCBI BLAST+** <a name="blast"></a>
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