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Recent Updates

Recent Updates

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 NameNew Library Name
Antibody CaptureAntibody Capture
CellPlex Multiplexing CaptureCellPlex Multiplexing Capture
CRISPR Guide CaptureCRISPR Guide Capture
Custom Feature Barcode LibraryCustom Feature Barcode
Antibody CaptureFlex Antibody Capture
Fixed RNA Profiling Antibody CaptureFlex Antibody Capture Multiplex
CRISPR Guide CaptureFlex CRISPR Guide Capture
GEM-X Single Cell 3' Gene ExpressionGEM-X 3’ Gene Expression v4
GEM-X Single Cell 5' Gene ExpressionGEM-X 5’ Gene Expression v3
Custom Multiplexing CaptureHashing with Antibody Capture
Next GEM Single Cell 3’ Gene ExpressionNext GEM 3’ Gene Expression v3
Next GEM Single Cell 3’ Gene Expression HTNext GEM 3’ Gene Expression v3 HT
Next GEM Single Cell 5’ Gene ExpressionNext GEM 5’ Gene Expression v2
Next GEM Single Cell 5’ Gene Expression HTNext GEM 5’ Gene Expression v2 HT
Single Cell Multiome ATACNext GEM Epi Multiome ATAC
Single Cell Multiome 3’ Gene ExpressionNext 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)JSingle Cell V(D)J
Single Cell V(D)J-BSingle 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 ExpressionTargeted Next GEM 3’ Gene Expression
Targeted Single Cell 3’ Gene Expression HTTargeted Next GEM 3’ Gene Expression HT
Targeted Single Cell 5’ Gene ExpressionTargeted Next GEM 5’ Gene Expression
Targeted Single Cell 5’ Gene Expression HTTargeted Next GEM 5’ Gene Expression HT
Next GEM Single Cell 3’ Gene Expression LTNext 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.

Archive

Access release notes for past versions of Cloud Analysis.