Ecosyste.ms: Issues

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GitHub / theislab/scib issues and pull requests

#319 - sc.pp.pca -> sc.tl.pca

Issue - State: open - Opened by adamgayoso over 2 years ago

#318 - Incosistent usage of hvg argument in integration.py

Issue - State: open - Opened by adamgayoso over 2 years ago - 1 comment

#317 - add harmony

Pull Request - State: closed - Opened by adamgayoso over 2 years ago - 2 comments

#316 - Update to scvi tools again, also scgen which now uses scvi tools

Pull Request - State: closed - Opened by adamgayoso over 2 years ago - 9 comments

#315 - Set revision for kBET installation

Pull Request - State: closed - Opened by johnarevalo almost 3 years ago - 2 comments

#314 - AssertionError: counts is not a valid key in adata.layers

Issue - State: open - Opened by smk5g5 almost 3 years ago - 2 comments

#313 - pcr when cells per batch is less than 50

Issue - State: closed - Opened by jayypaul almost 3 years ago - 1 comment

#312 - Add documentation for metrics preprocessing

Pull Request - State: closed - Opened by mumichae almost 3 years ago - 3 comments

#311 - Add test for duplicate columns

Pull Request - State: closed - Opened by mumichae almost 3 years ago - 1 comment

#310 - Add test for duplicate columns

Issue - State: closed - Opened by MxMstrmn almost 3 years ago - 1 comment

#309 - Fix scanorama batch reordering

Pull Request - State: closed - Opened by mumichae almost 3 years ago - 1 comment

#308 - FileNotFoundError: LISI graph fails at compute_simpson_index_graph

Issue - State: closed - Opened by mbuttner almost 3 years ago - 2 comments

#307 - Add pre-commit

Pull Request - State: closed - Opened by MxMstrmn almost 3 years ago - 7 comments

#306 - Fix duplicate cols scanorama

Pull Request - State: closed - Opened by MxMstrmn almost 3 years ago - 8 comments

#305 - Use pre-commit

Issue - State: closed - Opened by mumichae almost 3 years ago - 4 comments

#304 - Feat/add moransi

Pull Request - State: open - Opened by MxMstrmn almost 3 years ago - 11 comments

#303 - Add metric morans i

Pull Request - State: open - Opened by MxMstrmn almost 3 years ago

#301 - Improve LISI multiprocessing specification

Pull Request - State: closed - Opened by mumichae almost 3 years ago - 5 comments
Labels: bug

#299 - notebook with working tutorial and files

Issue - State: open - Opened by stemangiola almost 3 years ago - 10 comments
Labels: documentation

#296 - README.md AWS silhouette functions

Issue - State: closed - Opened by jessicafehlhaber almost 3 years ago - 1 comment

#291 - Cell_cycle error: svd_solver can not be used with sparse input

Issue - State: closed - Opened by XuezhenChen about 3 years ago - 3 comments

#290 - Evaluating batch removal using scIB

Issue - State: closed - Opened by XuezhenChen about 3 years ago - 4 comments
Labels: question

#280 - package import error in jupyter notebook

Issue - State: closed - Opened by myylee about 3 years ago - 3 comments

#278 - Function documentation

Issue - State: closed - Opened by lazappi about 3 years ago - 4 comments

#271 - Question about graph connectivity

Issue - State: closed - Opened by HelloWorldLTY over 3 years ago - 2 comments
Labels: question

#270 - Proper kBet test

Issue - State: closed - Opened by mumichae over 3 years ago - 2 comments
Labels: enhancement

#236 - Is there any tutorial for scIB

Issue - State: open - Opened by HelloWorldLTY over 3 years ago - 1 comment
Labels: documentation

#229 - adding missing ATAC reproducibility notebooks

Pull Request - State: closed - Opened by DaneseAnna almost 4 years ago - 7 comments

#226 - Update to scvi-tools

Pull Request - State: closed - Opened by adamgayoso almost 4 years ago - 4 comments

#216 - Update scvi to scvi-tools

Issue - State: closed - Opened by adamgayoso almost 4 years ago - 3 comments

#208 - Avoid filtering in normalization

Pull Request - State: closed - Opened by scottgigante about 4 years ago - 2 comments

#203 - Add option to use leiden

Pull Request - State: closed - Opened by scottgigante over 4 years ago - 4 comments

#180 - Clean up old timing code

Issue - State: closed - Opened by lazappi over 4 years ago - 2 comments

#170 - benchmarking datasets

Issue - State: closed - Opened by sqjin over 4 years ago - 4 comments

#160 - eval_subset_nn added

Pull Request - State: closed - Opened by mbuttner over 4 years ago - 5 comments