| 74905f1 | Gesmira | 10 January 2024, 16:15:10 UTC | exclude tests for v4 compatability | 10 January 2024, 16:15:10 UTC |
| 4f8231c | gesmira | 09 January 2024, 20:34:57 UTC | Update DESCRIPTION | 09 January 2024, 20:34:57 UTC |
| 40c98ce | gesmira | 04 January 2024, 23:19:09 UTC | going back to previous seurat-object version | 04 January 2024, 23:19:09 UTC |
| 45686fd | gesmira | 08 December 2023, 21:05:35 UTC | Specify SeuratObject version | 08 December 2023, 21:05:35 UTC |
| fec52c9 | gesmira | 03 October 2023, 21:28:11 UTC | undo | 03 October 2023, 21:28:11 UTC |
| 3168dd0 | gesmira | 03 October 2023, 19:23:25 UTC | Update DESCRIPTION | 03 October 2023, 19:23:25 UTC |
| 57564e2 | Paul Hoffman | 28 September 2023, 14:02:23 UTC | Merge pull request #7847 from satijalab/develop Seurat v4.4.0 | 28 September 2023, 14:02:23 UTC |
| d9f09de | Saket Choudhary | 27 September 2023, 22:10:12 UTC | Merge pull request #808 from satijalab/release/4.4.0 Release/4.4.0 | 27 September 2023, 22:10:12 UTC |
| 820f29d | Saket Choudhary | 27 September 2023, 21:48:44 UTC | Update news, bump version | 27 September 2023, 21:48:44 UTC |
| eab9e5a | Saket Choudhary | 27 September 2023, 21:48:18 UTC | Documentation updates | 27 September 2023, 21:48:18 UTC |
| ab5fc44 | Saket Choudhary | 27 September 2023, 20:32:00 UTC | Documentation updates | 27 September 2023, 20:32:00 UTC |
| aab57db | Saket Choudhary | 27 September 2023, 20:31:49 UTC | Documentation updates | 27 September 2023, 20:31:49 UTC |
| e577c8f | Saket Choudhary | 27 September 2023, 20:31:35 UTC | Updates for latest CRAN checks | 27 September 2023, 20:31:35 UTC |
| 643a57d | Saket Choudhary | 27 September 2023, 20:30:12 UTC | Fix checks for rasterization messages Fixes https://github.com/satijalab/seurat/pull/7842 | 27 September 2023, 20:30:12 UTC |
| cfd7eca | Saket Choudhary | 27 September 2023, 20:29:39 UTC | Import purrr for imap | 27 September 2023, 20:29:39 UTC |
| 170c1db | Saket Choudhary | 27 September 2023, 20:28:17 UTC | Merge remote-tracking branch 'origin/develop' into release/4.4.0 | 27 September 2023, 20:28:17 UTC |
| f20de9d | Paul Hoffman | 27 September 2023, 20:23:14 UTC | Merge branch 'master' into develop | 27 September 2023, 20:23:14 UTC |
| a55eb2f | AustinHartman | 16 September 2023, 00:27:29 UTC | update news, readme, desc | 16 September 2023, 00:27:29 UTC |
| 30e98e2 | Austin Hartman | 16 September 2023, 00:19:18 UTC | Merge pull request #793 from satijalab/fix/read-10x-image Update `Read10X_Image()` | 16 September 2023, 00:19:18 UTC |
| c6c0b30 | Paul Hoffman | 15 September 2023, 23:07:20 UTC | Bump develop version | 15 September 2023, 23:07:20 UTC |
| 4616cc6 | Paul Hoffman | 15 September 2023, 23:07:14 UTC | Update `Read10X_Image()` Fix reading scale factors in `Read10X_Image()` resolves satijalab/seurat#7706 | 15 September 2023, 23:07:14 UTC |
| 47bf3c2 | AustinHartman | 21 July 2023, 19:52:51 UTC | bump version; update NEWS | 21 July 2023, 19:52:51 UTC |
| 524c855 | Austin Hartman | 21 July 2023, 19:49:14 UTC | Merge pull request #7566 from mtgregory/master Correct lost gene expression column when loading NanoString CosMx data | 21 July 2023, 19:49:14 UTC |
| 3263910 | Saket Choudhary | 13 July 2023, 22:25:23 UTC | Merge pull request #776 from satijalab/fix/progressr Default to no progressr updates in PrepSCTFindMarkers | 13 July 2023, 22:25:23 UTC |
| 47740ad | Saket Choudhary | 13 July 2023, 22:23:22 UTC | Simplify PrepSCTFindmarkers | 13 July 2023, 22:23:22 UTC |
| 7cc0972 | Saket Choudhary | 13 July 2023, 21:50:01 UTC | Default to no progressr updates in PrepSCTFindMarkers | 13 July 2023, 21:50:01 UTC |
| 0042ec7 | Saket Choudhary | 13 July 2023, 20:55:54 UTC | Merge pull request #764 from satijalab/feat/prepsctfindmarker_parallel Add parallelization support for PrepSCTFindMarkers | 13 July 2023, 20:55:54 UTC |
| 4f0eaaa | Saket Choudhary | 13 July 2023, 20:54:45 UTC | Bump version; update NEWS | 13 July 2023, 20:54:45 UTC |
| 8830ed9 | Saket Choudhary | 13 July 2023, 20:09:42 UTC | Update SCT v2 vignette | 13 July 2023, 20:09:42 UTC |
| e49b318 | Saket Choudhary | 13 July 2023, 19:34:51 UTC | Merge branch 'develop' into feat/prepsctfindmarker_parallel | 13 July 2023, 19:34:51 UTC |
| 4547dcc | Saket Choudhary | 13 July 2023, 00:30:19 UTC | Merge pull request #7565 from satijalab/ParseUpdate update ReadParseBio to be compatible with latest split-pipe v1.1.0 | 13 July 2023, 00:30:19 UTC |
| 18840fd | Saket Choudhary | 13 July 2023, 00:17:47 UTC | Update news; bump version | 13 July 2023, 00:17:47 UTC |
| 2d7269e | Mark Gregory | 12 July 2023, 23:01:37 UTC | Correct dropped expression when loading CosMx data The LoadNanostring() function drops the first gene from the assay expression matrix. This patch corrects this and no longer drops this gene from the expression matrix. | 12 July 2023, 23:01:37 UTC |
| 9cd1167 | Efi Papalexi | 12 July 2023, 21:48:01 UTC | update function to be compatible with splitpipe v1.1.0 | 12 July 2023, 21:48:01 UTC |
| e5171f7 | Saket Choudhary | 07 July 2023, 17:09:43 UTC | Add parallelization support for PrepSCTFindMarkers | 07 July 2023, 17:09:43 UTC |
| 443ab86 | Saket Choudhary | 06 July 2023, 21:20:07 UTC | Merge pull request #760 from satijalab/fix/foldchange_counts Fix/foldchange counts | 06 July 2023, 21:20:07 UTC |
| c5d37be | Saket Choudhary | 06 July 2023, 21:18:57 UTC | Update documentation; bump version; update news | 06 July 2023, 21:18:57 UTC |
| 66e655a | Saket Choudhary | 06 July 2023, 21:05:42 UTC | Fix for using counts based test on SCT assay | 06 July 2023, 21:05:42 UTC |
| ae0dd07 | Saket Choudhary | 06 July 2023, 19:56:01 UTC | Merge branch 'fix/foldchange_DE' into develop | 06 July 2023, 19:56:01 UTC |
| d342294 | Saket Choudhary | 06 July 2023, 19:55:13 UTC | Update news; bump version | 06 July 2023, 19:55:13 UTC |
| da06136 | Saket Choudhary | 06 July 2023, 19:53:17 UTC | Merge pull request #755 from satijalab/fix/foldchange_DE Fix fold change calculation for SCT assay | 06 July 2023, 19:53:17 UTC |
| 992c1a9 | Saket Choudhary | 06 July 2023, 19:32:30 UTC | Fix foldchange calculation for all normalization approaches | 06 July 2023, 19:32:30 UTC |
| e08e108 | Saket Choudhary | 06 July 2023, 16:42:14 UTC | Fix fold change calculation for SCT assay | 06 July 2023, 16:42:14 UTC |
| a989986 | Saket Choudhary | 06 July 2023, 14:23:08 UTC | Merge pull request #749 from satijalab/revert-739-fix/fix_foldchange Revert "Fix fold change calculation for assays" | 06 July 2023, 14:23:08 UTC |
| 82575ba | Yuhan Hao | 06 July 2023, 13:41:37 UTC | Merge pull request #748 from satijalab/fix/scattermore Fix pt.size for rasterization | 06 July 2023, 13:41:37 UTC |
| 688f60c | Saket Choudhary | 06 July 2023, 13:35:49 UTC | Update news, bump version | 06 July 2023, 13:35:49 UTC |
| 45f447f | Saket Choudhary | 09 June 2023, 20:07:15 UTC | Revert "Fix fold change calculation for assays" | 09 June 2023, 20:07:15 UTC |
| b98aad1 | Saket Choudhary | 09 June 2023, 19:50:59 UTC | Default pt size to 1 when rasterizing | 09 June 2023, 19:50:59 UTC |
| e6a10bf | Austin Hartman | 02 June 2023, 20:10:25 UTC | Merge pull request #745 from satijalab/ah-fix-keep-scale fix `keep.scale` condition in `SpatialDimPlot` | 02 June 2023, 20:10:25 UTC |
| ef133f2 | AustinHartman | 02 June 2023, 20:09:42 UTC | bump version | 02 June 2023, 20:09:42 UTC |
| 0ee9d27 | AustinHartman | 02 June 2023, 18:59:17 UTC | add condition at scale_fill_gradientn step | 02 June 2023, 18:59:17 UTC |
| 48afb8b | AustinHartman | 02 June 2023, 18:54:46 UTC | typeof->class | 02 June 2023, 18:54:46 UTC |
| b97e42d | AustinHartman | 02 June 2023, 18:23:27 UTC | dont check feature max in dim plots | 02 June 2023, 18:23:27 UTC |
| 68d0378 | AustinHartman | 25 May 2023, 20:04:27 UTC | update NEWS | 25 May 2023, 20:04:27 UTC |
| 5ea83c7 | Austin Hartman | 25 May 2023, 19:54:14 UTC | Merge pull request #744 from satijalab/austin/load_curio add Curio Seeker load function | 25 May 2023, 19:54:14 UTC |
| 1577c11 | AustinHartman | 25 May 2023, 19:50:54 UTC | add Curio Seeker load function; bump verion | 25 May 2023, 19:50:54 UTC |
| 0ff737e | AustinHartman | 25 May 2023, 19:09:08 UTC | Merge branch 'develop' of https://github.com/satijalab/seurat into develop | 25 May 2023, 19:09:08 UTC |
| bc567ef | AustinHartman | 25 May 2023, 18:19:01 UTC | update formatting & news; bump version | 25 May 2023, 18:19:01 UTC |
| 6b07da6 | Austin Hartman | 25 May 2023, 18:07:43 UTC | Merge pull request #7141 from stephenwilliams22/stephen/spaceranger2.1 spaceranger 2.1 update | 25 May 2023, 18:07:43 UTC |
| 61e3c92 | Stephen Williams | 25 May 2023, 15:39:49 UTC | accidental remove GetResidual | 25 May 2023, 15:39:49 UTC |
| 11f888e | Stephen Williams | 25 May 2023, 15:30:26 UTC | updat Read10x_probe_metadata.Rd to use filename | 25 May 2023, 15:30:26 UTC |
| 5b45e01 | nathan-nakatsuka | 16 May 2023, 02:50:51 UTC | Merge pull request #739 from satijalab/fix/fix_foldchange Fix fold change calculation for assays | 16 May 2023, 02:50:51 UTC |
| a2be3b4 | Stephen Williams | 21 April 2023, 15:44:48 UTC | Update R/preprocessing.R Co-authored-by: Shaun Jackman <sjackman@gmail.com> | 21 April 2023, 15:44:48 UTC |
| 3662341 | Saket Choudhary | 14 April 2023, 15:42:56 UTC | Fix fold change calculation for assays | 14 April 2023, 15:43:10 UTC |
| 30f21e2 | Stephen Williams | 12 April 2023, 18:44:47 UTC | Add files via upload | 12 April 2023, 18:44:47 UTC |
| b9132c0 | Stephen Williams | 11 April 2023, 01:31:01 UTC | be more flexible with probe metadata | 11 April 2023, 01:31:01 UTC |
| 5fbc793 | Stephen Williams | 10 April 2023, 18:54:11 UTC | update docs | 10 April 2023, 18:54:11 UTC |
| fe3a5ef | Stephen Williams | 10 April 2023, 18:43:04 UTC | add ability to read raw_probe_bc_matrix.h5 | 10 April 2023, 18:43:04 UTC |
| 67e407d | Stephen Williams | 10 April 2023, 17:52:22 UTC | Merge branch 'develop' into stephen/spaceranger2.1 | 10 April 2023, 17:52:22 UTC |
| eaa786c | Stephen Williams | 10 April 2023, 17:50:55 UTC | merge devlop in | 10 April 2023, 17:50:55 UTC |
| 0a1a764 | Stephen Williams | 10 April 2023, 17:37:30 UTC | formatting | 10 April 2023, 17:37:30 UTC |
| 070e655 | Stephen Williams | 10 April 2023, 17:21:22 UTC | spaceranger 2.1 update | 10 April 2023, 17:21:22 UTC |
| da62e8a | Austin Hartman | 29 March 2023, 21:17:14 UTC | Merge pull request #6905 from samuel-marsh/keepscale_spatial keep.scale for SpatialPlot/SpatialFeaturePlot | 29 March 2023, 21:17:14 UTC |
| ba30617 | rsatija | 24 March 2023, 21:38:17 UTC | Update README.md | 24 March 2023, 21:38:17 UTC |
| 40625a6 | rsatija | 24 March 2023, 21:37:50 UTC | Update README.md | 24 March 2023, 21:37:50 UTC |
| 6a8a1cd | Austin Hartman | 28 February 2023, 15:12:03 UTC | Merge pull request #6986 from 10XGenomics/js/xenium_hotfix fix(Xenium): load renamed feature | 28 February 2023, 15:12:03 UTC |
| 9f6cc3f | AustinHartman | 28 February 2023, 14:58:09 UTC | add Xenium section to vignette | 28 February 2023, 14:58:09 UTC |
| e1620ee | Jordan Sicherman | 27 February 2023, 20:07:14 UTC | Allow loading renamed feature | 27 February 2023, 20:07:14 UTC |
| 3589ce9 | samuel-marsh | 30 January 2023, 14:36:12 UTC | update helper function SpatialFeaturePlot | 30 January 2023, 14:36:12 UTC |
| a89b635 | samuel-marsh | 30 January 2023, 14:35:06 UTC | add keep.scale SpatialPlot | 30 January 2023, 14:35:06 UTC |
| a96635a | Paul Hoffman | 16 December 2022, 20:06:26 UTC | Merge pull request #692 from satijalab/feat/fix_sct_model_split Fix FoldChange calculation | 16 December 2022, 20:06:26 UTC |
| d97a5f6 | Saket Choudhary | 16 December 2022, 19:36:12 UTC | Fix FoldChange.Seurat to handle appropriate normalization method; Add checks to PrepSCTFindmarkers for median UMI calculation | 16 December 2022, 19:36:12 UTC |
| 54e2fe5 | Paul Hoffman | 08 December 2022, 15:20:34 UTC | Merge pull request #6771 from satijalab/fix/as.Seurat.SingleCellExperiment Fix sce object conversion | 08 December 2022, 15:20:34 UTC |
| 04fdc70 | Paul Hoffman | 08 December 2022, 15:20:07 UTC | Update changelog Bump develop version | 08 December 2022, 15:20:07 UTC |
| 723b066 | timoast | 07 December 2022, 22:34:36 UTC | Fix sce object conversion; #6692 | 07 December 2022, 22:34:36 UTC |
| 763259d | Austin Hartman | 05 December 2022, 22:49:37 UTC | Merge pull request #6758 from satijalab/release/4.3.0 Seurat v4.3.0 | 05 December 2022, 22:49:37 UTC |
| ff03fdf | AustinHartman | 05 December 2022, 22:48:27 UTC | Merge branch 'master' into release/4.3.0 | 05 December 2022, 22:48:27 UTC |
| a4fa7b4 | AustinHartman | 05 December 2022, 22:47:35 UTC | update readme version | 05 December 2022, 22:47:35 UTC |
| a4baab7 | AustinHartman | 05 December 2022, 22:42:59 UTC | Merge branch 'master' into develop | 05 December 2022, 22:42:59 UTC |
| 8966e08 | AustinHartman | 05 December 2022, 22:41:52 UTC | update readme package version | 05 December 2022, 22:41:52 UTC |
| 418d494 | AustinHartman | 18 November 2022, 18:47:15 UTC | merge fix | 18 November 2022, 18:47:15 UTC |
| f6824c8 | Austin Hartman | 18 November 2022, 17:42:04 UTC | Merge pull request #5899 from satijalab/feat/imaging Add support for imaging-based spatial datasets | 18 November 2022, 17:42:04 UTC |
| 83f6a20 | AustinHartman | 18 November 2022, 17:40:38 UTC | update docs | 18 November 2022, 17:40:38 UTC |
| dfd6713 | Saket Choudhary | 18 November 2022, 03:21:28 UTC | Merge pull request #666 from satijalab/fix/fix_findmarkers Fix FindMarkers post Integration/Transfer | 18 November 2022, 03:21:28 UTC |
| e13a494 | Saket Choudhary | 18 November 2022, 03:20:27 UTC | Update NEWS | 18 November 2022, 03:20:27 UTC |
| 14115e2 | Austin Hartman | 17 November 2022, 22:18:51 UTC | Merge pull request #6440 from 10XGenomics/feat/xenium Xenium support | 17 November 2022, 22:18:51 UTC |
| a265a98 | Saket Choudhary | 15 November 2022, 20:37:52 UTC | Bump version | 15 November 2022, 20:37:52 UTC |
| 60737a1 | Saket Choudhary | 14 November 2022, 21:03:08 UTC | Increase tolerance | 14 November 2022, 21:03:08 UTC |
| 0e94e18 | Saket Choudhary | 14 November 2022, 20:54:49 UTC | Fix for FindMarkers to register normalization method when run post Integration/Transfer | 14 November 2022, 20:54:49 UTC |
| 2b3584c | Patrick Marks | 09 November 2022, 19:59:00 UTC | merge upstream | 09 November 2022, 19:59:00 UTC |
