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26 Open 98 Closed
26 Open 98 Closed
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Issues list

Limited qc_gene_list_mouse.csv enhancement New feature or request
#313 opened Oct 9, 2024 by JarneBelien
@bio-la @deevdevil88 @giuliaelgarcia
2
mouse cc genes option should be added to documentation documentation Improvements or additions to documentation
#310 opened Aug 20, 2024 by JarneBelien
@giuliaelgarcia
1
MOFA: >1TB RAM needed for ATAC
#308 opened Aug 20, 2024 by wlason
@wlason
No control over number of PCs in batch_correct_none
#307 opened Aug 13, 2024 by wlason
1
@SarahOuologuem
1
Combat integration removed from panpipes documentation Improvements or additions to documentation
#300 opened Jul 26, 2024 by wlason
@bio-la
GPU-enabled multiVI integration yaml issue
#299 opened Jul 26, 2024 by wlason
Error in ingestion of protein metadata table where first column = protein names
#297 opened Jul 25, 2024 by JP-KIR
Consistency in ATAC dimensionality reduction between preprocess and integration yamls
#294 opened Jul 22, 2024 by wlason
1
MultiVI: no integration_col_categorical argument
#293 opened Jul 16, 2024 by wlason
@bio-la
Multi-sample multiome data
#290 opened Jun 28, 2024 by bio-la
2 tasks
@bio-la
MultiVI fixes and installation enhancement New feature or request
#289 opened Jun 28, 2024 by bio-la
3 tasks
@bio-la
Panpipes ingest errros in writing out a concatenated MuData object when hashing abs are present in the prot modailty bug Something isn't working
#280 opened Jun 4, 2024 by deevdevil88
2
panpipes visualisations, legend point size is being weird
#260 opened Apr 22, 2024 by deevdevil88
3
Problems with Harmony k-means calculation
#239 opened Mar 20, 2024 by wlason
2
500,000 nuclei of multiome data has very high memory requirements for batch correction (1.2 TB)
#214 opened Mar 6, 2024 by mgrantpeters
1
scanvi refmap fails when query_celltype not specified in yaml
#213 opened Mar 5, 2024 by wlason
1
Refmap fails if protein slot present in mudata
#207 opened Mar 2, 2024 by wlason
check for scaling in .X
#136 opened Nov 24, 2023 by bio-la
Documentation suggestions documentation Improvements or additions to documentation
#119 opened Oct 24, 2023 by JHYSiu
Possible improvement: moving the python environment to poetry
#108 opened Sep 18, 2023 by JBinkowski
reduce wnn runtime by fetching the precomputed no_batch_* enhancement New feature or request
#102 opened Sep 15, 2023 by bio-la
@bio-la @crichgriffin
Clustering will not work to find prot markers for rna clusters when samples/ no of cells in rna and adt are not identical bug Something isn't working
#92 opened Sep 6, 2023 by deevdevil88
Possible scATAC extensions enhancement New feature or request
#49 opened May 17, 2023 by SarahOuologuem
2 of 6 tasks
[preprocess] write out cell numbers returns only rna values
#43 opened May 9, 2023 by crichgriffin
check downsample background in dsb script
#9 opened Mar 3, 2023 by bio-la
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