Frequently Asked Questions

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Early access
Project transfers and collaboration
Analyses and supported products
Data management

Early access

What are the differences between the Early Access period and the general release of 10x Genomics Cloud Analysis?
During the Early Access period, we will not be charging for data storage, analyses, or downloads. Instead, there will be a limit to downloads and analyses.

After the Early Access period, there will also be a limit to free analysis runs, downloads and data storage. The exact limits are still being determined. You will be able to purchase additional downloads and analyses for a usage-based cost.

Will my data be saved on 10x Genomics Cloud Analysis after the Early Access period is over?
Yes, any data you upload or generate on Cloud Analysis will be saved after the Early Access period. You will be given an additional free storage period and can optionally choose to store data long term for a monthly usage-based cost. We will also notify you before any data is deleted from Cloud Analysis.

When will 10x Genomics Cloud Analysis be generally available?
We expect Cloud Analysis to be generally available in the US at the beginning of 2021.

Project transfers and collaboration

What collaboration features are available? Can I share my projects or data with collaborators?
Cloud Analysis allows you to transfer projects from one user account to another user account. In the Project Settings page of each project, you will find a place to enter the email address of the person you'd like to transfer the project to. Note: during the Early Access period, projects can only be transferred successfully to other users participating in the Early Access period.

We expect to add more collaboration features over time, including the ability to invite multiple users to the same project.

Have ideas about collaboration features that you'd like to see? Give feedback to the team.

Is there a limit on how many project transfers can be done?
Each project can be transferred up to 3 times.

Analysis and supported products

What analysis pipelines are supported?
Currently, we support Cell Ranger count, aggr, and reanalyze (v4.0). For more information on analysis pipeline available on Cloud Analysis, visit this page.

What references are available? Can I use a custom reference?
Currently, Cloud Analysis provides the following references compatible with Cell Ranger:

For more information on these references including build steps, visit the Cell Ranger references page.

Can I use a custom reference?
Custom references are currently not available on Cloud Analysis, though we expect to support them soon. For more information on upcoming features, visit our product roadmap.

Data management

What are the options for uploading data to 10x Genomics Cloud Analysis?
Currently we support uploading through the 10x Genomics Cloud CLI. View our tutorial to learn more about uploading. We expect to add additional upload methods in the future. If there are other methods you’d prefer or require to use Cloud Analysis, give feedback to the team.

What systems can I upload FASTQ files from?
Currently, we support uploading from Linux and MacOS systems. Learn more about uploading FASTQ files using the 10x Genomics Cloud CLI here.

Can I download my data?
Yes, you can download analysis outputs through the browser or through provided wget and curl commands. Currently, we do not support downloading FASTQ files, though we expect to add the functionality in the future.

What is 10x Genomics doing to secure my data?
We care about securing your data and protecting your user account. Here are some of the protocols and practices we have in place: