| **Analysis Pipelines** | **Pipeline Version** | **Library Types** |
| -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- | ---------------------------------------------------------------------------------------------------------------------------------------------- | --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
| Space Ranger count Visit the [Space Ranger count documentation](/support/software/space-ranger/latest/analysis/running-pipelines/count-visium-hd) to learn more. | <ul style={{ width: "48px"}}><li>3.1</li><li>3.0</li> </ul> | <ul style={{ width: "240px"}}><li>Visium HD Spatial Gene Expression</li></ul> |
| Cell Ranger count Visit the [Cell Ranger count documentation](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-gex-count) to learn more. | <ul style={{ width: "48px"}}><li>9.0</li><li>8.0</li><li>7.2</li><li>7.1</li><li>7.0</li><li>6.1</li><li>6.0</li><li>5.0</li><li>4.0</li><li>3.1</li></ul> | <ul style={{ width: "240px"}}><li>Universal 3’ Gene Expression</li><li>Universal 5’ Gene Expression</li><li>Feature Barcode Libraries<ul><li>Antibody Capture</li><li>Custom Library</li></ul></li></ul> |
| Cell Ranger multi Visit the following pages to learn more about Cell Ranger multi with [sample multiplexing data](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-3p-multi), [Flex data](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-flex-multi-frp), and [V(D)J data](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-5p-multi). | <ul><li>9.0</li><li>8.0</li><li>7.2</li><li>7.1</li><li>7.0</li><li>6.1</li><li>6.0</li><li>5.0</li><li>4.0</li><li>3.1</li></ul> | <ul><li>Universal 3’ Gene Expression</li><li>Universal 5’ Gene Expression</li><li>Flex Gene Expression</li><li>Feature Barcode Libraries<ul><li>Antibody Capture</li><li>CRISPR Guide Capture</li><li>Custom Library</li><li>Flex Antibody Capture</li><li>Flex CRISPR Guide Capture</li></ul></li><li>Universal 5' V(D)J</li><li>Sample multiplexing</li><ul><li>3' CellPlex</li><li>On-chip multiplexing (OCM)</li><li>Hashing with Antibody Capture</li></ul></ul> |
| Cell Ranger aggr Visit the [Cell Ranger aggr documentation](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-3p-aggr) to learn more. | <ul><li>9.0</li><li>8.0</li><li>7.2</li><li>7.1</li><li>7.0</li><li>6.1</li><li>6.0</li><li>5.0</li><li>4.0</li><li>3.1</li></ul> | <ul><li>Universal 3’ Gene Expression</li><li>Universal 5’ Gene Expression</li><li>Flex Gene Expression</li><li>Feature Barcode Libraries<ul><li>Antibody Capture</li><li>CRISPR Guide Capture</li><li>Custom Library</li><li>Flex Antibody Capture</li><li>Flex CRISPR Guide Capture</li></ul></li><li>Universal 5' V(D)J</li><li>Sample multiplexing</li><ul><li>3' CellPlex</li><li>On-chip multiplexing (OCM)</li><li>Hashing with Antibody Capture</li></ul></ul> |
| Cell Ranger vdj Currently, the 10x Cloud Platform does not support Cell Ranger vdj in de novo mode. Visit the [Cell Ranger vdj documentation](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-5p-vdj) to learn more. | <ul><li>9.0</li><li>8.0</li><li>7.2</li><li>7.1</li><li>7.0</li><li>6.1</li><li>6.0</li><li>5.0</li><li>4.0</li><li>3.1</li></ul> | <ul><li>Universal 5' V(D)J</li></ul> |
| Cell Ranger reanalyze<﻿sup>1 Visit the [Cell Ranger reanalyze](/support/software/cell-ranger/latest/analysis/running-pipelines/cr-3p-reanalyze) documentation to learn more. | <ul><li>9.0</li><li>8.0</li><li>7.2</li><li>7.1</li><li>7.0</li><li>6.1</li><li>6.0</li><li>5.0</li><li>4.0</li><li>3.1</li></ul> | <ul><li>Universal 3' Gene Expression</li><li>Universal 5' Gene Expression</li></ul> |
| SCTransform/Harmony workflow for [data integration](/support/software/cloud-analysis/latest/tutorials/CA-normalization-batch-correction) | <ul><li>1.0 </li></ul> | <ul><li>Universal 3' Gene Expression</li><li>Universal 5' Gene Expression</li><li>Flex Gene Expression</li></ul>
| Cell Ranger annotate (Beta) Visit the [Cell Ranger annotate](https://10xgen.com/cell-annotation) documentation to learn more. | <ul><li>0.2 </li></ul> | <ul><li>Universal 3' Gene Expression</li><li>Universal 5' Gene Expression</li><li>Flex Gene Expression</li></ul>
| Cell Ranger ARC count Visit the [Cell Ranger ARC count documentation](/support/software/cell-ranger-arc/latest) to learn more. | <ul><li>2.0</li></ul> | <ul><li>Epi Multiome ATAC + Gene Expression</li></ul> |
| Cell Ranger ARC aggr Visit the [Cell Ranger ARC aggr documentation](/support/software/cell-ranger-arc/latest) to learn more. | <ul><li>2.0</li></ul> | <ul><li>Epi Multiome ATAC + Gene Expression</li></ul> |
| Cell Ranger ARC reanalyze<﻿sup>1 Visit the [Cell Ranger ARC reanalyze documentation](/support/software/cell-ranger-arc/latest) to learn | <ul><li>2.0</li></ul> | <ul><li>Epi Multiome ATAC + Gene Expression</li></ul> |

<﻿sup>1**At this time, reanalysis of aggregated analyses (Cell Ranger) is not available in Cloud Analysis.**

Supported Products

Supported Pipelines and Products

This page describes current pricing and billing policies for 10x Genomics Cloud Analysis. All pricing and use of 10x Genomics Cloud Analysis remain subject to the [10x Genomics Cloud Services Terms](/legal/cloud-terms-of-use).

<LinkableSection id={"overview"} title={"Pricing"}>

 

Free usage is provided for every 10x Genomics dataset. These free limits include the full analysis workflow on a per sample basis—from upload to analysis and download—as described below. Beyond these limits, pay only for what you use with no upfront commitment.

<DocumentCallout>Paid transactions above free limits are only available in the United States and Canada. See [Usage outside the U.S. and Canada](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#usage-outside-us-canada)</DocumentCallout>

| What you can do | Included for free | Price after free limits (USD) |
| ----------------------------------- | --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- | ----------------------------- |
| Run 10x Genomics analysis pipelines | 5 analyses free for each uploaded dataset [Learn more](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#whats-included-a56794) | $5.00 per analysis |
| Store data | 90 days of free storage for each uploaded dataset and analysis output 365 days of free storage for each custom reference directory [Learn more](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#whats-included-a56794) | $0.02 per GB per month |
| Download analysis outputs | Download up to 150% the total size of each analysis output for free [Learn more](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#whats-included-a56794) | $0.10 per GB |
| Download custom references | Download each uploaded custom reference directory once for free [Learn more](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#whats-included-a56794) | $0.10 per GB |
| Download FASTQ files | Download each uploaded FASTQ file once for free [Learn more](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#whats-included-a56794) | $0.10 per GB |

In addition, some input and output files for each analysis are stored at no cost and are not subject to the 90-day storage limit, including the web summary, feature-barcode matrix, and Loupe Browser file. The free download limits in the table above also do not apply to these files; you can download them as many times as you need. View more details [below](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#files-with-ongoing-free-storage-and-downloads-82636a).

10x Genomics Cloud Analysis and the 10x Genomics Cloud CLI use the abbreviation GB (rather than GiB) to refer to 1024 MB.

Prices shown in the application do not include tax and are estimates only. The actual cost will depend on your usage and activity. Rounding is applied on a per file basis, with N.5 cents rounding to even. Transactions totaling less than `$0.005` will be rounded down to `$0.00`. All prices shown are in U.S. dollars and customers are responsible for any currency exchange rates if using any currency besides U.S. dollars.

</LinkableSection>

<LinkableSection id={"whats-included-a56794"} title={"What's included"}>

 
#### Analyses

Each uploaded dataset can be used up to five times as an input to an analysis pipeline for free. If you need to use a dataset for additional analyses beyond what’s included for free, you will be charged $5.00 per analysis. The transaction is finalized when the analysis pipeline successfully finishes. Failed or cancelled analyses will not incur costs or count towards your free analyses.

#### Data storage

Data that is uploaded or generated from running analysis pipelines is stored at no cost for 90 days. Custom reference files are stored at no cost for 365 days. After reaching these no cost storage limits, the data will be automatically deleted unless you opt-in to paid storage.

We will send you an email notification 10 days before data expires and is permanently deleted from your account. Deleted data may be temporarily stored in our archives but 10x Genomics does not guarantee retrieval of deleted data. There is no action required if you choose not to store your data past the free storage period on Cloud Analysis.

If you would like to opt-in to ongoing data storage for FASTQ files or analysis outputs, visit the Data Storage settings page from within a project. If you would like to opt-in to ongoing data storage for custom reference files, visit the [Data Storage](https://cloud.10xgenomics.com/cloud-analysis/custom-references/settings/data-storage) settings page for custom references. From there, you can opt-in to ongoing paid storage at $0.02/GB per month. You will only be charged to store data that is outside the free storage period.

Storage costs will be included on your monthly invoice. You can turn off paid data storage for a project or custom reference at any time. If you turn off paid data storage during a billing cycle, you will only be billed for the portion of the month that your data was stored.

#### Downloads

Each analysis created on Cloud Analysis will generate a collection of output files which come with free downloads. Output files can be freely downloaded up to 150% the total size of the output files. For example, if an analysis generates 100GB of data, you can download 150GB worth of data for that analysis at no cost.

You can also download FASTQ files that are uploaded to your account. Each FASTQ file can be downloaded once for free.

Each custom reference directory is compressed before upload and stored as a single compressed tar archive file (.tar.gz). Each custom reference tar archive can be downloaded once for free.

You will incur usage-based download charges of $0.10/GB for any downloads of data or other files exceeding the free amounts described above. Before initiating a paid download, you will have the chance to confirm the transaction and see an estimated cost. **Costs displayed in Cloud Analysis are estimates based on the size of the data selected for download. The actual cost will depend on your download usage.** After confirming the transaction, Cloud Analysis will generate download links for the files selected for download by which you can initiate the download. Initiating a download creates the transaction. For example, if you generate a download link for a file, and that link is used three times, the actual cost will be calculated as 3x the single file size. If you generate a download link and do not use it to initiate any downloads, no charge will be incurred.

Once you have generated download links they will remain active for 12 hours. **You will be charged for all downloads using your download links — please store the links securely and do not share these download links with others unless you plan to accept charges for downloads that they initiate using your links.**

</LinkableSection>

<LinkableSection id={"files-with-ongoing-free-storage-and-downloads-82636a"} title={"Files with ongoing free storage and downloads"}>

 

Some input and outputs files for each analysis, listed below, are stored at no cost and are not subject to the 90-day limits on other files. The free download limits also do not apply to these files; you can download them as many times as you need.

| Analysis | Files |
| ----------------------------------------- | -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
| cellranger count | Web summary Loupe Browser file Summary CSV Per-molecule read information Feature / cell matrix HDF5 (filtered) Feature / cell matrix HDF5 (raw) Feature Reference CSV (if provided) Antibody analysis directory (if generated) CRISPR analysis directory (if generated) |
| cellranger reanalyze | Secondary analysis web summary Loupe Browser file Feature / cell matrix HDF5 (filtered) Parameters CSV (if provided) Genes CSV (if provided) Barcodes CSV (if provided) Excluded genes CSV (if provided) |
| cellranger vdj | Web summary Loupe V(D)J Browser file Summary CSV All contig info (ProtoBuf format) Inner enrichment primers file (if provided) AIRR rearragement* All Contig Annotations CSV* All Contig FASTA* All Contig FASTQ index* Clonotypes CSV* Donor Regions* Filtered Contig Annotations CSV* Filtered Contig FASTA* |
| cellranger multi | Per-Sample count and/or V(D)J outputs corresponding to count and V(D)J files with ongoing storage Config CSV Multi web summary (if generated) Multiplexing analysis output directory (if generated) Sample Barcodes CSV (if generated) Loupe Browser file (raw, if generated) |
| cellranger aggr | Loupe Browser file Aggregation metrics summary HTML Aggregation metrics summary JSON Aggregation CSV Feature / cell matrix HDF5 (filtered) Feature / cell matrix HDF5 (raw) |
| Data integration with SCTransform/Harmony | Integrated Feature/Cell matrix Integrated Loupe Browser file Cell Annotation Report Cell Annotation Details |
| Automated cell type annotation | Annotation web summary Loupe Browser file Annotation by cell Cell types CSV file Differential expression CSV |
| cellranger-arc count | Run summary HTML Run summary metrics CSV Per-barcode summary metrics CSV Filtered feature-barcode matrix HDF5 Raw feature-barcode matrix HDF5 Loupe Browser file Molecule information HDF5 Barcoded and aligned fragments TSV Fragment file index TSV Peak locations BED |
| cellranger-arc aggr | Run summary HTML Run summary metrics CSV Filtered peak-barcode matrix HDF5 Raw peak-barcode matrix HDF5 Loupe Browser file Barcoded and aligned fragments TSV Fragment file index TSV Peak locations BED Aggregation CSV |
| cellranger-arc reanalyze | Secondary analysis summary JSON Filtered feature barcode matrix HDF5 Loupe Browser file Barcodes CSV (user-generated input) BED file (user-generated input) Parameters CSV (user-generated input) |

\*These files are included as part of the no cost storage for analyses initated after December 9, 2024.

</LinkableSection>

<LinkableSection id={"usage-outside-us-canada"} title={"Usage outside the U.S. and Canada"}>

- We are unable to offer paid services outside of the United States and Canada. However, Cloud Analysis provides free limits that allow all users to process data on a per-sample basis.
- As described in [Pricing](/support/software/cloud-analysis/latest/miscellaneous/CA-billing#overview), there is no limit to the number of 10x Genomics datasets that can be uploaded. For each dataset, users can perform five analyses, store the output for up to 90 days, and download all outputs within free usage limits.
- When using Cloud Analysis from outside the U.S. and Canada, remember to download your data within 90 days, as extended storage is not available. You can opt-in for email notifications to remind you before your data expires. By downloading your data timely, you can continue to use Cloud Analysis for each dataset at no additional cost.

</LinkableSection>

<LinkableSection id={"billing-and-payments-8055ee"} title={"Billing and payments"}>

 

Usage beyond what’s included for free will be billed monthly. A billing cycle is 30 days and begins after your first paid transaction. Your actual costs will depend on your usage of the services.

You can sign up to pay automatically by card or manually via monthly email invoices. Visit your Account Billing page to sign up: https://cloud.10xgenomics.com/account/billing. Payments and payment information are processed by [Stripe](https://stripe.com), an online payment processing provider.

#### Auto-pay by card

If you sign up for auto-pay, your card will be automatically charged on a monthly basis for any 10x Genomics Cloud Analysis paid usage. A copy of the invoice will be emailed to you 7 days before your card is charged. After the payment is processed, you will be sent a receipt via email.

You can cancel auto-pay by visiting your Account Billing page and deleting the auto-pay option. If you delete your card information, we may retain your usage address for tax purposes.

#### Pay manually by card

If you sign up to pay manually, we will send you a monthly invoice via email for any 10x Genomics Cloud Analysis paid usage. The email will contain a link to an online payment form where you can pay with a card. Stripe may save your card information for subsequent payment authorizations by you. **Payment is due within 30 days of the invoice date.**

You can cancel manual payment by visiting your [Account Billing](https://cloud.10xgenomics.com/account/billing) page and deleting the manual pay option. If you delete your manual payment method, we may retain your usage address for tax purposes.

</LinkableSection>

<LinkableSection id={"tax-c99220"} title={"Tax"}>

 

Depending on your usage address, you may be charged sales tax for paid usage of Cloud Analysis, which will be included on your invoices. The usage address is where you will be using 10x Genomics Cloud Analysis (usually the same as your company or organization address). You can specify your usage address when you sign up for either manual pay or auto-pay options.

Currently, tax is collected from customers with usage addresses in the following states: California, Connecticut, Florida, Illinois, Maryland, Massachusetts, Missouri, New Jersey, New York, North Carolina, Ohio, Pennsylvania, Texas, and Washington.

- If you are purchasing on behalf of a tax exempt organization in one of these states, contact our Cloud Customer Service team to request tax exemption. Email [customerservice@10xgenomics.com](mailto:customerservice@10xgenomics.com) for more information. Please make sure that you have a copy of your tax exempt certificate available. After tax exemption has been enabled for your account, tax will not be included on your future invoices.
- If you are located in a different state, you are responsible for paying any applicable sales taxes.

Note: The list of states where tax is collected is subject to change without prior notice.

</LinkableSection>

<LinkableSection id={"contact-cloud-customer-service-for-help-c3b1af"} title={"Contact Cloud Customer Service for help"}>

 
If you have any questions or issues, please reach out to [customerservice@10xgenomics.com](mailto:customerservice@10xgenomics.com).

</LinkableSection>

Billing

10x Genomics Cloud Analysis is a platform for data management, analysis, and collaboration to simplify and accelerate the interpretation of 10x Genomics datasets. Cloud Analysis makes it easier than ever to run 10x analysis pipelines and manage your experimental data.

Overview

Tutorials

FAQs

Release Notes

Cloud Analysis

Learn how to create a free account using the two different log-in options.

Account creation

Upload input files into your projects using the Web Uploader.

Upload via Web Browser

Upload input files into your projects using the 10x Genomics Cloud CLI.

Upload via CLI

In addition to the pre-built human and mouse reference packages available in Cloud Analysis, you can upload and use your own custom references in your Cloud Analysis projects.

Upload a reference

After uploading input files into your project in Cloud Analysis, you are ready to analyze your data.

Create analyses

You are given four unique options for downloading your output files for each completed analysis. These options have certain benefits and limitations that make them appropriate for different circumstances.

Download output files

Cloud Analysis allows you to combine data from multiple samples.

Data Integration Workflows

Cloud Analysis allows you to transfer projects from your user account to another user account.

Transfer projects

The 10x Genomics Cloud CLI is a command line interface (CLI) that allows you to upload input files to projects in your 10x Genomics account, create projects from the command line, and manage other tasks related to your 10x Genomics account.

CLI Documentation

10x Genomics Cloud Analysis is a platform for data management, analysis, and collaboration to simplify and accelerate the interpretation of supported 10x Genomics single cell and spatial datasets. Cloud Analysis makes it easier than ever to run 10x analysis pipelines and manage your experimental data.

What is Cloud Analysis?

<Text as={'p'} size={'small'} weight={'medium'}>If you are a member of a core lab or service provider, see <Anchor href={'/support/software/cloud-analysis/latest/getting-started/CA-guidance-for-cores'}>{'how Cloud Analysis can help improve your workflow'}</Anchor>. Explore the new <Text as={'p'} size={'small'} weight={'medium'}> <li><Anchor href={'/support/software/cloud-analysis/latest/tutorials/CA-normalization-batch-correction'}>{'SCTransform/Harmony data integration workflow'}</Anchor>.</li></Text> <li><Anchor href={'/support/software/cloud-analysis/latest/tutorials/CA-cell-annotation-pipeline'}>{'Beta pipeline for generating cell annotations'}</Anchor>.</li></Text>

Projects are where you upload data and run analysis pipelines. People typically create projects for each experiment. You can upload different samples to a single project.

Create Projects

Upload input files either directly from your web browser or via the 10x Genomics Cloud CLI.

Upload input files

After uploading, select the file sets that you want to work with. Then configure your pipeline settings and start the analysis.

Create Analyses

You can optionally receive an email when your analysis completes. When your results are ready, you can download the analysis outputs and explore your data using Loupe Browser or a variety of community-developed tools.

Download Results

10x Genomics pre-built human, mouse, and barnyard references are available. You may optionally upload your own custom references to use in the analyses on your account.

Optional workflow steps

We provide resources from protocols, user guides, and free-to-use analysis tools.

Find answers to frequently asked questions, including information about browser and operating system support.

We regularly add new features to 10x Genomics Cloud. Find details about the updates and improvements on this page.

Find information about our free usage policies and optional paid services.

Miscellaneous