Ecosyste.ms: Issues

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GitHub / scverse/muon issues and pull requests

#40 - Empty uns after reloading causes mu.pp.neighbors error

Issue - State: closed - Opened by emdann about 3 years ago
Labels: bug

#39 - Aggregating peaks doesn't work at all

Issue - State: closed - Opened by maxim-h about 3 years ago - 1 comment
Labels: bug

#38 - add pysam dependency

Pull Request - State: closed - Opened by maxim-h about 3 years ago - 1 comment

#37 - ATAC QC error

Issue - State: closed - Opened by taopeng1100 about 3 years ago - 4 comments
Labels: enhancement

#36 - Copying MuData objects

Issue - State: closed - Opened by gtca about 3 years ago - 8 comments

#35 - Update preproc.py

Pull Request - State: closed - Opened by WeilerP about 3 years ago

#34 - Simplify sparsity check

Issue - State: closed - Opened by WeilerP about 3 years ago - 2 comments

#33 - Fix / tabs to spaces

Pull Request - State: closed - Opened by WeilerP about 3 years ago - 1 comment

#32 - Indentation contains mixed spaces and tabs

Issue - State: closed - Opened by WeilerP about 3 years ago

#31 - unify logging

Issue - State: open - Opened by ilia-kats over 3 years ago - 1 comment

#30 - Can't get copy for a view

Issue - State: closed - Opened by liuzj039 over 3 years ago
Labels: bug

#29 - Triger AttributeError "X not found" when use layer parameter in mu.tl.embedding

Issue - State: closed - Opened by liuzj039 over 3 years ago - 3 comments
Labels: bug

#28 - Feat / seurat flavored clr

Pull Request - State: closed - Opened by WeilerP over 3 years ago - 2 comments

#27 - Seurat flavored CLR

Issue - State: closed - Opened by WeilerP over 3 years ago
Labels: enhancement

#26 - Switch build system over to flit

Pull Request - State: closed - Opened by ilia-kats over 3 years ago

#25 - fix installation

Pull Request - State: closed - Opened by pjb7687 over 3 years ago - 13 comments

#23 - In-place filtering is ambiguous for Views

Issue - State: closed - Opened by gtca over 3 years ago - 1 comment
Labels: enhancement

#22 - HTML representation for Jupyter notebooks

Issue - State: closed - Opened by gtca over 3 years ago
Labels: enhancement

#21 - Aggregating peaks doesn't work for backed objects

Issue - State: closed - Opened by gtca over 3 years ago
Labels: bug, atac

#20 - Refactor fragments

Pull Request - State: open - Opened by mffrank almost 4 years ago - 1 comment

#19 - Introduce explicit syntax to detach backed modalities

Issue - State: open - Opened by gtca almost 4 years ago
Labels: enhancement

#18 - .copy() doesn't work for backed files

Issue - State: closed - Opened by gtca almost 4 years ago - 3 comments
Labels: bug

#17 - Reading a backed AnnData from the .h5mu fails

Issue - State: closed - Opened by gtca almost 4 years ago - 9 comments
Labels: bug

#16 - Implement multimodal nearest neighbor search

Pull Request - State: closed - Opened by ilia-kats almost 4 years ago - 1 comment

#15 - Mefisto

Pull Request - State: closed - Opened by bv2 almost 4 years ago

#13 - implement obsp/varp for MuData objects (closes #11)

Pull Request - State: closed - Opened by ilia-kats almost 4 years ago

#12 - Implement louvain and leiden algorithms accepting multiple graphs

Issue - State: closed - Opened by gtca almost 4 years ago
Labels: enhancement

#11 - Enable .obsp / .varp for MuData

Issue - State: closed - Opened by gtca almost 4 years ago
Labels: enhancement

#10 - New I/O & plotting functions and CITE-seq-related functionality

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

#9 - Implement DSB normalization for CiteSEQ data (closes #4)

Pull Request - State: closed - Opened by ilia-kats almost 4 years ago

#8 - enforce black code style, black-ify existing code

Pull Request - State: closed - Opened by ilia-kats almost 4 years ago

#7 - do not expose our internal structure in the docs

Pull Request - State: closed - Opened by ilia-kats almost 4 years ago

#6 - enable slicing for MuData objects (closes #3)

Pull Request - State: closed - Opened by ilia-kats almost 4 years ago - 3 comments

#5 - Genome bins

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

#4 - Implement dsb normalisation for CITE-seq data

Issue - State: closed - Opened by gtca about 4 years ago
Labels: enhancement

#3 - Implement MuData object slicing

Issue - State: closed - Opened by gtca about 4 years ago - 2 comments
Labels: enhancement

#2 - File backing

Pull Request - State: closed - Opened by ilia-kats about 4 years ago - 1 comment

#1 - Implement `backed` for AnnData and .h5mu files, MuData

Issue - State: closed - Opened by gtca about 4 years ago
Labels: enhancement