Soon
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hubΒΆ
dbΒΆ
πΈ Do not treat the bionty default space differently from other entities PR @falexwolf
π Fix documentation for branch attributes PR @falexwolf
β»οΈ Use
settings.is_configuredinstead of deprecatedsettings._instance_existsPR @Koncopd⨠Add and use
settings.is_configuredinstead of the internalsettings._instance_existsPR @Koncopdπ½οΈ Do not pass role_arn to access aws credentials PR @Koncopd
:label: Fix type annotations of
@strict_classmethodand@instance_or_classmethodPR @falexwolfπ Less stringent unique constraint in
ArtifactSchemaPR @falexwolfπ Polish the documentation, use strict docs builds PR @falexwolf
:children_crossing: Add dedicated agent skills PR @falexwolf
πΈ Handle error reports in
@ln.flow()better PR @falexwolfπ Also save source code in
Transform.from_path()PR @falexwolf:children_crossing: Speed up and prettify output of
lamin list branchPR @falexwolfπ· Profile import time PR @falexwolf
π Fix
lamin create branchhub path PR @falexwolfπ· Define group for profiling job PR @falexwolf
π· Run profiling on pushes to main branch PR @falexwolf
:memo: Introduce
CanonicalSuffixto better document howArtifact.suffixgets populated PR @falexwolfπ Introduce
CanonicalSuffixto better document howArtifact.suffixgets populated PR @falexwolf:children_crossing: Merge branches without requiring global branch switch PR @sheetalgiri
β»οΈ Actually label reverse accessor for
output_transformsPR @falexwolf:children_crossing: Allow only file and folder suffixes from the pre-defined lists PR @Koncopd
:children_crossing: Allow only file and folder suffixes from the pre-defined lists PR @Koncopd
πΈ Add
to_artifact()toRecordSetPR @falexwolfπΈ Make behavior of
to_dataframe(include="features')consistent acrossQuerySetandRegistryPR @falexwolfπΈ More concise warning upon missing or surplus modules PR @falexwolf
πΈ Expose high-level field names on queries through M2M fields PR @falexwolf
π Update filter expression in README PR @falexwolf
usecasesΒΆ
π Move the
lightning.mddoc fromlamindbhere PR @falexwolfπ Add EWAS Data Hub PR @falexwolf
:lipstick: Polish Arc Atlas tutorial PR @falexwolf
π¨ Add test to Arc and run atlases group without authentication PR @falexwolf
β»οΈ Simplify the Arc guide PR @falexwolf
π Fix typo in arc tutorial PR @sunnyosun
β»οΈ Start running the curation notebook again PR @falexwolf
π· Re-enable running the
sc-imagingguide on CI PR @falexwolf:recycle: More robust execution strategy PR @falexwolf
β¨ Add DNA methylation usecase PR @sheetalgiri
:sparkles: Add the laminated Scanpy
pbmc3ktutorial PR @sheetalgiriModify Artifact dataframe features in spatial3.md PR @falexwolf
β»οΈ Reflect overhauled lightning integration PR @falexwolf
:bug: Make the cellxgene registration workflow more robust PR @ishitajain9717
πΈ No need for a LaminDB instance just to query PR @falexwolf
π¨ Fix formatting in the spatial guide PR @namsaraeva
π Remove scanpy pinning PR @namsaraeva
π· Clean up repo PR @falexwolf
β»οΈ Convert ipynb to md PR @falexwolf
β»οΈ Convert ipynb to md PR @falexwolf
β»οΈ Convert ipynb to md PR @falexwolf
β»οΈ Convert ipynb to md PR @falexwolf
β»οΈ Convert ipynb to md PR @falexwolf
π Update guides to reflect the overhauled
lightningintegration PR @Zethsonβ»οΈ Simplify and clarify usage of
@ln.flow()PR @falexwolfπ Fix
_set_default_colors_for_categorical_obsfor the spatial guide PR @namsaraevaπ· Polish repo setup PR @falexwolf
π Rename wetlab to pertdb PR @sunnyosun
π Polish 3 βLeverage ontologiesβ guides and the
geneguide PR @sunnyosunπ Fix CI PR @sunnyosun
ποΈ Use
_dtype_strrather thandtypePR @falexwolfπ Fix errors and outdated code in cellxgene guide PR @sunnyosun
π Overhaul the
spatialdataguide PR @namsaraevaπ Fix CI PR @sunnyosun
β»οΈ Rename QueryDB to DB and arc_db to db PR @falexwolf
π Rename
QueryDBtoDBandcxg_dbtodbPR @falexwolfUpdate notebook link and dataset description in spatial4 PR @namsaraeva
β»οΈ Migrate
scrna2to schema-based curator and simplify heavily PR @falexwolfπ Rename
.using()to.connect()PR @falexwolfRemove hide output from code cell in sc-imaging4 PR @namsaraeva
π₯ Remove
analysis-flowuse case PR @falexwolfπ Rename
df()toto_dataframe()PR @falexwolfπ Rename
.df()to.to_dataframe()PR @falexwolfβ»οΈ Move
arc-virtual-cell-atlasandhubmapnotebook here PR @falexwolfβ»οΈ Canonicalize import patterns PR @falexwolf
biontyΒΆ
π Fix docs warnings PR @falexwolf
π§ More minimal
pyproject.tomlto lower maintenance burden PR @falexwolfπ·οΈ Mark as py.typed PR @falexwolf
π± Update EFO URL to use GitHub release link PR @sunnyosun