Cell Ranger v9.0.0 is now available on Cloud Analysis to support GEM-X Flex Gene Expression (GEM-X On-chip Multiplexing and Cell Hashing using Antibody Capture support are coming soon).
New Human and Mouse 2024-A compatible probeset references are now available for selection.
New VDJ output files are made available as part of no cost, long term availability for analyses initiated after December 9, 2024. Please see Files with ongoing free storage and downloads for more details.
Library names in Cloud Analysis have been streamlined to make them shorter and more user-friendly. These changes are designed to enhance clarity and improve your overall experience.
This table maps the old library names to their new versions for your reference:
| Previous Library Name | New Library Name |
|---|---|
| Antibody Capture | Antibody Capture |
| CellPlex Multiplexing Capture | CellPlex Multiplexing Capture |
| CRISPR Guide Capture | CRISPR Guide Capture |
| Custom Feature Barcode Library | Custom Feature Barcode |
| Antibody Capture | Flex Antibody Capture |
| Fixed RNA Profiling Antibody Capture | Flex Antibody Capture Multiplex |
| CRISPR Guide Capture | Flex CRISPR Guide Capture |
| GEM-X Single Cell 3' Gene Expression | GEM-X 3’ Gene Expression v4 |
| GEM-X Single Cell 5' Gene Expression | GEM-X 5’ Gene Expression v3 |
| Custom Multiplexing Capture | Hashing with Antibody Capture |
| Next GEM Single Cell 3’ Gene Expression | Next GEM 3’ Gene Expression v3 |
| Next GEM Single Cell 3’ Gene Expression HT | Next GEM 3’ Gene Expression v3 HT |
| Next GEM Single Cell 5’ Gene Expression | Next GEM 5’ Gene Expression v2 |
| Next GEM Single Cell 5’ Gene Expression HT | Next GEM 5’ Gene Expression v2 HT |
| Single Cell Multiome ATAC | Next GEM Epi Multiome ATAC |
| Single Cell Multiome 3’ Gene Expression | Next GEM Epi Multiome Gene Expression |
| Single Cell Fixed RNA Profiling (Singleplex) | Next GEM Flex Gene Expression |
| Single Cell Fixed RNA Profiling (Multiplex) | Next GEM Flex Gene Expression Multiplex |
| Single Cell V(D)J | Single Cell V(D)J |
| Single Cell V(D)J-B | Single Cell V(D)J-B |
| Single Cell V(D)J-T (Alpha Beta) | Single Cell V(D)J-T (Alpha Beta) |
| Single Cell V(D)J-T (Gamma Delta) | Single Cell V(D)J-T (Gamma Delta) |
| Targeted Single Cell 3’ Gene Expression | Targeted Next GEM 3’ Gene Expression |
| Targeted Single Cell 3’ Gene Expression HT | Targeted Next GEM 3’ Gene Expression HT |
| Targeted Single Cell 5’ Gene Expression | Targeted Next GEM 5’ Gene Expression |
| Targeted Single Cell 5’ Gene Expression HT | Targeted Next GEM 5’ Gene Expression HT |
| Next GEM Single Cell 3’ Gene Expression LT | Next GEM 3’ Gene Expression LT |
Space Ranger v3.1.2 is now available on Cloud Analysis to support Visium HD Spatial Gene Expression (Visium v1/v2 are not supported).
Space Ranger v3.1.1 is now available on Cloud Analysis to support Visium HD Spatial Gene Expression (Visium v1/v2 are not supported).
Cloud Analysis now offers a beta pipeline for generating cell type annotations from Cell Ranger count and multi outputs. The cell annotation pipeline will be available via command line interface in the next release of Cell Ranger.
Space Ranger v3.0.1 is now available on Cloud Analysis to support Visium HD Spatial Gene Expression (Visium v1/v2 are not supported). The 10x Genomics Cloud CLI has been updated accordingly. Throughout this website and the Cloud Analysis interface, information about uploading FASTQ files has been generalized to refer to input files, which includes FASTQs, images, and potentially other files in the future. The txg fastqs CLI tool has been replaced with txg files; usage is otherwise nearly identical. Users of the txg files tool can now set the -assumeyes flag to automatically answer yes (Y) when prompted to continue an upload.
Please note that Visium HD Spatial Gene Expression is the only Visium product currently supported on 10x Genomics Cloud Analysis. Support for additional Visium assays will be added in the future.
Cell Ranger v8.0.1 is now the default version in Cloud Analysis and includes various bug fixes, detailed in the Cell Ranger Release Notes. Please note that there is a known issue where duplicate pipelines may be displayed for certain analyses. If you encounter duplicate pipelines, disregard the one labeled "Not compatible with the selected input" and proceed with the other available selection.
Cloud Analysis is now available globally with the exception of China, Hong Kong, and countries subject to U.S. embargo. Optional paid services are only available in the United States and Canada. See Usage outside the U.S. and Canada on our Billing page for more information.