> ## Documentation Index
> Fetch the complete documentation index at: https://wiki.latch.bio/llms.txt
> Use this file to discover all available pages before exploring further.

# What are Latch Workflows?

> Latch's Workflow Manager comes with out-of-the-box community workflows and a Python SDK that allows uploading of custom workflows.

<video autoPlay muted loop playsInline className="w-full aspect-video" class="rounded-md">
  <source src="https://mintcdn.com/latchbio/rAgK9Jh7PMGtmcOA/images/workflows/workflows-wiki-overview.mp4?fit=max&auto=format&n=rAgK9Jh7PMGtmcOA&q=85&s=c97fab8a9f69a5be566e234cf3c52d48" type="video/mp4" data-path="images/workflows/workflows-wiki-overview.mp4" />

  <source src="https://mintcdn.com/latchbio/rAgK9Jh7PMGtmcOA/images/workflows/workflows-wiki-overview.webm?fit=max&auto=format&n=rAgK9Jh7PMGtmcOA&q=85&s=9afd571d34d60ba77fe89703591b7180" type="video/webm" data-path="images/workflows/workflows-wiki-overview.webm" />
</video>

<CardGroup cols={2}>
  <Card title="For Developers" icon="square-terminal" iconType="solid" color="CB7638" href="/workflows/overview#bring-your-own-workflow">
    Define serverless bioinformatics workflows using plain Python & deploy associated no-code interfaces with single command.
  </Card>

  <Card title="For Biologists" icon="square-virus" iconType="solid" color="DF5971" href="/workflows/overview#out-of-the-box-verified-workflows">
    Access our suite of pre-built, optimized workflows designed to address common bioinformatics challenges.
  </Card>
</CardGroup>

## Bring your own workflow

Latch providers a robust development toolkit that allows developers to upload an existing pipeline written in Snakemake, Nextflow, or Python.

Key benefits of the Latch SDK:

* **Instant no-code interfaces** for **accessibility and publication**.
* **Containerization and versioning** of **every registered change**.
* **Reliable and scalable** managed cloud infrastructure.
* **Automatically run workflows** on top of folders in Latch Data.

### Get Started with the Latch SDK

<CardGroup cols={3}>
  <Card title="Create a new workflow with our Python SDK" href="/workflows/sdk/python/quick-start" icon="rectangle-code" iconType="solid" color="4B7AF9">
    The fastest way to get started-ideal for those with ad-hoc scripts to create a workflow.
  </Card>

  <Card
    title="Upload a Nextflow pipeline"
    href="/workflows/sdk/nextflow/overview"
    icon={<svg width="24" height="24" viewBox="0 0 24 24" fill="none" xmlns="http://www.w3.org/2000/svg">
<path fill-rule="evenodd" clip-rule="evenodd" d="M7.85976 11.6234C7.66215 8.48947 5.14343 5.97456 2 5.76664V2.10974C7.17371 2.32401 11.3267 6.46818 11.5307 11.6234H7.85976ZM2 18.2936C5.14661 18.0968 7.67171 15.5883 7.88048 12.4575H11.5522C11.3371 17.6104 7.1761 21.7466 2 21.9497V18.2936ZM16.0399 11.602C16.2487 8.47122 18.7738 5.96265 21.9204 5.76584V2.10974C16.7443 2.3129 12.5833 6.44913 12.3682 11.602H16.0399ZM16.0606 12.4362C16.2583 15.57 18.777 18.085 21.9204 18.2929V21.9498C16.7467 21.7355 12.5937 17.5913 12.3897 12.4362H16.0606Z" fill="#0DC09D"/>
</svg>}
    color="4B7AF9"
  >
    Create GUIs from Nextflow projects with minimal added boilerplate & code.
  </Card>

  <Card
    title="Upload a Snakemake pipeline"
    href="/workflows/sdk/snakemake/quickstart"
    icon={<svg width="24" height="24" viewBox="0 0 24 24" fill="none" xmlns="http://www.w3.org/2000/svg">
<path fill-rule="evenodd" clip-rule="evenodd" d="M15.2821 3.01276C16.7442 3.02481 18.0161 3.5088 19.0978 4.46471C19.6801 4.97996 20.1393 5.58258 20.4752 6.27259C20.6116 6.55356 20.6673 6.81495 20.6425 7.05675C20.5957 7.50495 20.3814 7.82284 19.9995 8.01041C19.7863 8.11436 19.4391 8.16633 18.9577 8.16633H8.75681C6.90449 8.37575 5.6902 9.31019 5.11394 10.9697C5.01978 11.2416 4.96894 11.564 4.9614 11.9369C4.95462 12.2683 4.9486 12.5975 4.94332 12.9244C4.94106 13.0721 4.8872 13.0943 4.78174 12.9911C3.66689 11.8973 3.07519 10.6088 3.00664 9.12564C2.97123 8.36558 3.07745 7.62435 3.32528 6.90195C3.7554 5.64699 4.54182 4.64889 5.68455 3.90766C6.58548 3.32387 7.61898 3.0267 8.78506 3.01615C10.9507 2.99581 13.1164 2.99468 15.2821 3.01276ZM17.1453 5.23645C17.1453 5.04825 17.0706 4.86776 16.9375 4.73469C16.8044 4.60162 16.6239 4.52686 16.4358 4.52686C16.2476 4.52686 16.0671 4.60162 15.934 4.73469C15.8009 4.86776 15.7262 5.04825 15.7262 5.23645C15.7262 5.42464 15.8009 5.60513 15.934 5.7382C16.0671 5.87128 16.2476 5.94604 16.4358 5.94604C16.6239 5.94604 16.8044 5.87128 16.9375 5.7382C17.0706 5.60513 17.1453 5.42464 17.1453 5.23645ZM9.039 9.43857L14.6039 9.43744C15.1244 9.42463 15.6419 9.45552 16.1564 9.53009C17.3368 9.70033 18.3567 10.1941 19.2162 11.0114C20.1141 11.8641 20.6723 12.9033 20.8907 14.1289C21.2312 16.0399 20.7759 17.7175 19.5247 19.1615C19.4403 19.2587 19.3405 19.3397 19.2252 19.4045C19.207 19.4146 19.1866 19.4201 19.1658 19.4206C19.145 19.421 19.1244 19.4163 19.1058 19.407C19.0872 19.3976 19.0711 19.3839 19.0591 19.3669C19.047 19.3499 19.0393 19.3302 19.0365 19.3096C19.0177 19.1566 19.0162 19.0022 19.032 18.8463C19.0531 18.6346 19.0599 18.4817 19.0524 18.3875C18.8964 16.5443 17.9292 15.3334 16.1507 14.7549C15.8148 14.6456 15.4121 14.5929 14.9428 14.5967C10.7674 14.6298 8.58289 14.6238 8.38929 14.5786C7.25787 14.3149 6.56673 13.7093 6.31589 12.7617C6.10949 11.982 6.21608 11.2608 6.63566 10.5979C7.12454 9.825 7.92565 9.43857 9.039 9.43857ZM17.3715 17.062C16.8209 16.1912 15.9478 15.7942 14.7524 15.871C11.4462 15.8341 8.1397 15.8349 4.8328 15.8733C4.51717 15.8771 4.26143 15.926 4.06558 16.0202C3.3251 16.3757 3.15863 16.9851 3.56615 17.8484C4.11906 19.0183 4.99362 19.8932 6.18983 20.4732C6.49868 20.6224 6.80978 20.7346 7.12315 20.8099C7.44555 20.8875 7.77361 20.9365 8.10731 20.9568C8.87867 21.0043 9.65078 21.0344 10.4236 21.0472C11.1347 21.0585 12.5882 21.0517 14.784 21.0269C15.4002 21.0201 15.8405 20.9715 16.1049 20.8811C16.5538 20.7274 16.9271 20.4604 17.2246 20.08C17.5825 19.6205 17.7704 19.1109 17.7885 18.5512C17.8058 18.0262 17.6668 17.5298 17.3715 17.062Z" fill="#039475"/>
</svg>
}
    iconType="solid"
    color="4B7AF9"
  >
    Integrate your existing Snakemake pipelines with Latch, and easily create a GUI.
  </Card>
</CardGroup>

## Out-of-the-box Verified Workflows

Latch offers ready-to-use Verified <Tooltip tip="A workflow is an analysis that takes in some input, processes it in one or more steps and produces some output.">Workflows</Tooltip>  for a variety of common assays, including bulk RNA-seq, scRNA-seq, AlphaFold, ColabFold, and more.

These Verified Workflows are developed using the Latch Python SDK by Latch engineers and have been used by top 10 pharmaceutical companies and hundreds of biotech firms to enhance their research and discovery efforts.

Examples of Latch Verified Workflows:

<CardGroup cols={3}>
  <Card
    title="Bulk RNA-seq"
    href="/workflows/bulk-rna-seq"
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</svg>
}
    color="42C698"
  >
    Perform alignment and quantification on Bulk RNA-Sequencing reads.
  </Card>

  <Card
    title="DESeq2 (Differential Expression)"
    href="/workflows/bulk-rna-seq#deseq2-quantification"
    icon={<svg width="24" height="24" viewBox="0 0 24 24" fill="none" xmlns="http://www.w3.org/2000/svg">
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}
    color="3B9D2C"
  >
    Estimate variance-mean dependence in count data from high-throughput sequencing assays.
  </Card>

  <Card
    title="Pathway Enrichment Analysis"
    href="/workflows/bulk-rna-seq#pathway-analysis"
    icon={<svg width="24" height="24" viewBox="0 0 24 24" fill="none" xmlns="http://www.w3.org/2000/svg">
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</svg>
}
    color="9546FF"
  >
    Use differential expression contrast data to calculate the gene ontology and pathways for the most significant genes.
  </Card>

  <Card
    title="AlphaFold"
    href="https://console.latch.bio/workflows/87049/info"
    icon={<svg width="24" height="24" viewBox="0 0 24 24" fill="none" xmlns="http://www.w3.org/2000/svg">
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    Generate highly accurate protein structures predictions.
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    The ColabFold version of AlphaFold2 is optimized for extremely fast predictions on small proteins.
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    Analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments.
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