feat(preprocessing): add optimal shifted CLR (PFlog) normalization - #4160

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rwbaber wants to merge 25 commits into

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rwbaber:feature/normalize_clr

Commits on Jun 15, 2026

refactor(pp): finalize normalize_clr API per review
rwbaber
committed
f652a7e
feat(pp): support dask arrays in normalize_clr
rwbaber
committed
6eee954
test(pp): cover alpha="auto" zero-mean overdispersion error
rwbaber
committed
b284927

Commits on Jun 24, 2026

Merge branch 'main' into feature/normalize_clr
ilan-gold
authored
f344a8e

Commits on Jun 30, 2026

Merge branch 'main' into feature/normalize_clr
Intron7
authored
7cf8a5b

Commits on Jul 7, 2026

Merge remote-tracking branch 'upstream/main' into feature/normalize_clr
rwbaber
committed
4212ccf

Commits on Jul 8, 2026

Add sparse PFlog normalization and PCA support
rwbaber
committed
3549f19
Merge branch 'main' into feature/normalize_clr
ilan-gold
authored
1438bf9
Merge branch 'main' into feature/normalize_clr
rwbaber
committed
4b3321f
Merge remote-tracking branch 'origin/feature/normalize_clr' into feature/normalize_clr
rwbaber
committed
2cac9ef
Refine PFlog metadata and Dask target handling
rwbaber
committed
30a7f4f
Fix stale AnnData concatenation tutorial link
rwbaber
committed
3fd7086

Commits on Jul 10, 2026

Merge branch 'main' into feature/normalize_clr
rwbaber
authored
a1f1acb

Commits on Jul 20, 2026

Merge branch 'main' into feature/normalize_clr
rwbaber
authored
d3c6b73

Commits on Jul 21, 2026

Merge branch 'main' into feature/normalize_clr
rwbaber
authored
dff3612
Merge branch 'main' into feature/normalize_clr
rwbaber
authored
4538e36

Commits on Sep 1, 2026

Merge upstream/main into feature/normalize_clr
rwbaber
committed
96c4a8b

Commits on Sep 2, 2026

refactor(preprocessing): simplify normalize_clr to dense PFlog
rwbaber
committed
5110b39
fix(preprocessing): relax CLR doctest tolerance
rwbaber
committed
2abb963

Commits on Sep 8, 2026

Merge branch 'main' into feature/normalize_clr
rwbaber
authored
e7e0560