Update Scanpy to 1.10, preparing for GTA #6162

Merged

bgruening merged 57 commits intogalaxyproject:mainfrom pavanvidem:scanpy-1.10

Sep 14, 2024

+3,396-2,610

Commits on Aug 25, 2024

Update Scanpy to 1.10

pavanvidem
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nilchia
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update some tests

pavanvidem
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nilchia
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update some existing function parameters, add pp.scrublet function

pavanvidem
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nilchia
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Change tool names to start with Scanpy

pavanvidem
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nilchia
committed
Update a few more clustering functions

pavanvidem
authored and
nilchia
committed
Add pl.tracksplot, pl.scrublet_score_distribution

pavanvidem
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nilchia
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update a few more ploting functions

pavanvidem
authored and
nilchia
committed
add rank_genes_groups_tracksplot and update some other params

pavanvidem
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nilchia
committed
Add harmony, scanorama and bbkn params

pavanvidem
authored and
nilchia
committed
Add tests for batch correction methods and scrublet

pavanvidem
authored and
nilchia
committed
test
nilchia
committed
fixed filter.xml
nilchia
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inspect.xml is fixed
nilchia
committed
Fixed remove_confounders
nilchia
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fix mnnpy
nilchia
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plot.xml is fixed
nilchia
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fixed lint error
nilchia
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remove header variable from plot.xml
nilchia
committed

Commits on Aug 27, 2024

Commits on Aug 28, 2024

Commits on Sep 4, 2024

comment for cp
nilchia
committed

Commits on Sep 5, 2024

indentation
nilchia
committed

Commits on Sep 6, 2024