TXG CLI v3.0.1 has been released in order to resolve an issue where file upload would fail for Windows devices.
Cloud Analysis now offers the flexibility to analyze Flex libraries with or without a transcriptome reference.
The analysis of Multiplex Flex CRISPR is now available with Cell Ranger v9.0.1 on Cloud Analysis.
The emptydrops_min_umis parameter in the cellranger multi pipeline is now available for Flex libraries with Cell Ranger v9.0.1.
Human and mouse 2024-A transcriptome references for Cell Ranger ARC are now accessible on Cloud Analysis.
When selecting libraries in Cloud Analysis, the on-chip multiplexing (OCM) library is now labeled with "OCM" in its name.
The analysis of Universal Gene Expression samples hashed with Antibody Capture is now available with Cell Ranger v9.0.1 on Cloud Analysis.
The enable-tsne parameter in the cellranger aggr pipeline is now available with Cell Ranger v9.0.1.
The Cloud Analysis UI has been updated to improve navigation in projects of over 100 FASTQ files. If you encounter any issues while sorting or assigning libraries, please refresh your browser.
The analysis of Universal Gene Expression + CRISPR Guide Capture libraries with on-chip multiplexing (OCM) is now available with Cell Ranger v9.0.1 on Cloud Analysis.
Support for analyzing libraries hashed with Antibody Capture is coming soon.
Space Ranger 3.1.3 is now available on Cloud Analysis to support Visium HD Spatial Gene Expression (Visium v1/v2 are not supported).
The 10x Genomics prebuilt Rattus norvegicus transcriptome reference is now available for use with Cell Ranger v9.0.0 (and later) on Cloud Analysis.
GEM-X on-chip multiplexing (OCM) is now available on Cloud Analysis with Cell Ranger v9.0.
Known issue: GEM-X CRISPR Guide Capture analysis with sample multiplexing is not yet enabled in v9.0 (coming soon).
Cell Ranger v9.0.0 is now available on Cloud Analysis to support GEM-X Flex Gene Expression. GEM-X on-chip multiplexing is coming soon.
New Human and Mouse 2024-A compatible probe set 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 |