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Pull requests: scverse/scanpy

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Pull requests list

docs: document the adata.uns['hvg'] output of pp.highly_variable_genes
#4344 opened Sep 3, 2026 by asharaali Loading…
3 tasks done
1
1
fix: run t-test on log values regardless of mean_in_log_space
#4337 opened Sep 2, 2026 by cindykrafft Loading…
2 of 3 tasks
1
1
feat: add anndata.acc support to mask params
#4333 opened Sep 1, 2026 by flying-sheep Member Loading…
3 of 5 tasks
1.13.0
1
7
fix: handle scalar string groups in ranked-gene plots
#4330 opened Aug 31, 2026 by yingluosanqian Loading…
1 of 3 tasks
2
fix: keep FlyBase gene nan when reading 10x mtx
#4329 opened Aug 29, 2026 by joncarse Contributor • Draft
2 of 3 tasks
1
4
feat: add configurable columns to PAGA plots
#4325 opened Aug 27, 2026 by AtomicGlance Loading… 1.13.0
1
6
fix: sc.pl.paga cax handling with multiple colors
#4319 opened Aug 22, 2026 by AdvaitS Loading…
2 of 3 tasks
1
1
feat: Add ncols parameter to pl.paga
#4317 opened Aug 22, 2026 by AdvaitS Loading…
2 of 3 tasks
1
1
fix: only warn from log1p when the target representation was already transformed
#4298 opened Aug 16, 2026 by Mohit-Ak • Draft
1
2
docs: document norm parameter for embedding scatter plots
#4297 opened Aug 14, 2026 by Zethson Member • Draft 1.12.5
1
1
feat: support acc shortcuts
#4288 opened Aug 11, 2026 by flying-sheep Member Loading…
1 of 3 tasks
1.13.0
@flying-sheep
7
Update template to v0.8.0
#4221 opened Jul 17, 2026 by scverse-bot Loading…
1
feat: pp.scale allow selecting correction
#4220 opened Jul 16, 2026 by AxelMcKenna Contributor Loading…
2 of 3 tasks
2
feat: add min_cells parameter to dotplot
#4218 opened Jul 15, 2026 by AlsoTheZv3n Loading…
1
feat: add Array API support via array-api-compat
#4179 opened Jun 25, 2026 by amalia-k510 Contributor • Draft
26
feat: add networkit flavor for parallel Leiden clustering
#4170 opened Jun 22, 2026 by amalia-k510 Contributor • Draft
16
feat(preprocessing): add optimal shifted CLR (PFlog) normalization
#4160 opened Jun 14, 2026 by rwbaber Contributor Loading…
1 of 3 tasks
26
fix(experimental.pp.hvg): scope per-batch clip threshold in pearson_residuals HVG Area – Preprocessing 🧼
#4138 opened May 23, 2026 by Arshammik Loading… 1.12.5
5
fix: anchor sc.pl.scatter colorbar to user-supplied ax
#4137 opened May 21, 2026 by gkneighb Loading… 1.12.5
1
3
feat: allow precomputed connectivities in neighbors
#4133 opened May 19, 2026 by ehsanestaji • Draft
2 of 3 tasks
1.12.5
1
3
fix: consistent modularity by using Weighted_Adjacency directly
#4113 opened May 8, 2026 by flying-sheep Member • Draft
2 of 3 tasks
2.0.0
1
4
add backends
#4108 opened May 7, 2026 by Intron7 Member Loading… 1.13.0
9
feat: add keep_sparse parameter for aggregate and optimize it
#4073 opened Apr 17, 2026 by mumichae Contributor Loading…
3 tasks done
1.13.0
1
6
feat: add layer argument to 10x read functions
#4072 opened Apr 17, 2026 by flying-sheep Member • Draft
1 of 3 tasks
1
1
perf: parallel downsample
#4004 opened Mar 18, 2026 by flying-sheep Member • Draft
11
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