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Merge pull request #8484 from satijalab/release/5.0.2
Prep for release of 5.0.2
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# Unreleased | ||
# Seurat 5.0.2 (2024-02-28) | ||
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## Changes | ||
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# Seurat v5.0.0 | ||
# Seurat v5.0.2 | ||
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## Test environments | ||
* local ubuntu 20.04 install, R 4.1.3 | ||
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There were no ERRORs or WARNINGs | ||
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There were two NOTEs | ||
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> * checking CRAN incoming feasibility ... NOTE | ||
> Maintainer: 'Rahul Satija <[email protected]>' | ||
> New maintainer: | ||
> Rahul Satija <[email protected]> | ||
> Old maintainer(s): | ||
> Paul Hoffman <[email protected]> | ||
New maintainer is Rahul Satija, the email address has remained the same. | ||
There was one NOTE | ||
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> Suggests or Enhances not in mainstream repositories: | ||
> BPCells, presto | ||
> Availability using Additional_repositories specification: | ||
> presto yes https://satijalab.r-universe.dev | ||
> BPCells no ? | ||
> ? ? https://bnprks.r-universe.dev | ||
> Additional repositories with no packages: | ||
> https://bnprks.r-universe.dev | ||
> Packages suggested but not available for checking: 'BPCells', 'presto' | ||
> BPCells yes https://satijalab.r-universe.dev | ||
BPCells and presto are hosted on R-universe and used conditionally in Seurat. | ||
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## Downstream dependencies | ||
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The following reverse dependencies are impacted by this release of Seurat: | ||
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- AnanseSeurat | ||
- Failure in examples and test because of changes in how default objects are created in Seurat. | ||
- Functionality impacted. The author was made aware of these changes: https://github.com/JGASmits/AnanseSeurat/issues/34 | ||
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- CAMML | ||
- Failure in example because of changes in how default objects are created in Seurat. | ||
- Functionality impacted. The author was made aware of these changes over email | ||
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- Canek | ||
- Failure in tests because of changes in how default objects are created in Seurat. | ||
- Functionality impacted. The author was made aware of these changes: https://github.com/MartinLoza/Canek/issues/20 | ||
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- clustree: | ||
- Failure in tests because of changes in data accessor methods in Seurat. | ||
- Functionality impacted. The author was made aware of these changes: https://github.com/lazappi/clustree/issues/93 | ||
- Author has incorporated changes | ||
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- CSCDRNA | ||
- Failure in tests because of changes in data accessor methods in Seurat. | ||
- Functionality impacted. The author was made aware of these changes: https://github.com/empiricalbayes/CSCDRNA/issues/1 | ||
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- scCustomize | ||
- Failure in example because of changes in how default objects are created in Seurat. | ||
- Functionality impacted. The author was made aware of these changes: https://github.com/samuel-marsh/scCustomize/issues/131 | ||
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- SCpubr: | ||
- Failure in example because of changes in how default objects are created in Seurat. | ||
- Functionality impacted. The author was made aware of these changes: https://github.com/enblacar/SCpubr/issues/42 | ||
There are two packages that depend on Seurat: CACIMAR and scCustomize; this update does not impact their functionality | ||
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- Signac | ||
- Faulure in new tests because of SeuratObject changing the order of the results, but not the actual values. | ||
- Functionality not impacted. The author was made aware of these changes over email and has made changes. | ||
There are 28 packages that import Seurat: AnanseSeurat, APackOfTheClones, bbknnR, CAMML, DR.SC, DWLS, ggsector, mixhvg, nebula, Platypus, PRECAST, ProFAST, rPanglaoDB, scaper, scDiffCom, scfetch, scGate, scGOclust, scMappR, scperturbR, scpoisson, SCRIP, scRNAstat, SignacX, SoupX, SPECK, STREAK, and tidyseurat; this update does not impact their functionality | ||
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- tidyseurat | ||
- Faulure in new tests because of SeuratObject changing the order of the results, but not the actual values. | ||
- Functionality not impacted. The author was made aware of these changes: https://github.com/stemangiola/tidyseurat/issues/74 | ||
- VAM | ||
- Failure in tests because of changes in data accessor methods in Seurat. | ||
- Functionality impacted. The author was made aware of these changes over email | ||
There are 22 packages that suggest Seurat: BisqueRNA, Canek, cellpypes, CIARA, ClustAssess, clustree, combiroc, conos, countland, CRMetrics, CytoSimplex, DIscBIO, dyngen, grandR, harmony, RESET, rliger, SCORPIUS, SCpubr, Signac, treefit, and VAM; this update does not impact their functionality |
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