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30 Open 45 Closed
30 Open 45 Closed
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Issues list

Implement testing enhancement New feature or request
#154 opened Apr 7, 2025 by nictru
@nictru
Add option for skipping gene aggregation enhancement New feature or request
#153 opened Apr 7, 2025 by nictru
Add flag to prevent writing of intermediate anndata objects to the working directory enhancement New feature or request
#151 opened Apr 7, 2025 by nictru
Remove duplicate execution of Cellbender enhancement New feature or request
#147 opened Apr 1, 2025 by milos7250
add scDblFinder module enhancement New feature or request
#144 opened Mar 23, 2025 by KurayiChawatama
@KurayiChawatama
Seurat Integration fails due to future.globals.maxSize limit bug Something isn't working
#143 opened Feb 17, 2025 by fhausmann
Implement gene regulatory network analyses enhancement New feature or request
#119 opened Oct 27, 2024 by nictru
@MeyerhoeferNicolai
Create nf-core module for Scrublet enhancement New feature or request good first issue Good for newcomers
#116 opened Oct 27, 2024 by nictru
@pavlemarinkovic
Create nf-core module for DecontX enhancement New feature or request good first issue Good for newcomers
#113 opened Oct 27, 2024 by nictru
@lea-lenhardtackovic
Create nf-core module for SoupX enhancement New feature or request good first issue Good for newcomers
#112 opened Oct 27, 2024 by nictru
1
@nictru @LeonHafner
Move preprocessing modules to nf-core/modules enhancement New feature or request
#109 opened Oct 27, 2024 by nictru
@nictru
Improve preprocess_only implementation enhancement New feature or request
#108 opened Oct 27, 2024 by nictru
@albertulll
4
Implement cell-cell interaction analyses enhancement New feature or request
#107 opened Oct 27, 2024 by nictru
Allow doublet detection score calculation without actually removing doublets enhancement New feature or request
#106 opened Oct 27, 2024 by nictru
Add option for per-sample specification of doublet detection thresholds enhancement New feature or request
#88 opened Sep 13, 2024 by nictru
MultiQC fails with latest dev release bug Something isn't working
#83 opened Sep 6, 2024 by alexblaessle
Implement SingleR cell type assignment enhancement New feature or request
#24 opened Jun 13, 2024 by nictru Stable transcriptomics
1
Implement scPred cell type assignment enhancement New feature or request
#23 opened Jun 13, 2024 by nictru Stable transcriptomics
Implement Azimuth cell type assignment enhancement New feature or request
#22 opened Jun 13, 2024 by nictru Stable transcriptomics
Implement cell type assignment methods enhancement New feature or request overview Meta-issue for tracking related issues
#20 opened Jun 13, 2024 by nictru Stable transcriptomics
@nictru
3
Implement DoubletFinder doublet detection enhancement New feature or request Needs conda
#18 opened Jun 13, 2024 by nictru Stable transcriptomics
Implement DoubletDecon doublet detection enhancement New feature or request Needs conda
#17 opened Jun 13, 2024 by nictru Stable transcriptomics
Implement doublet detection methods enhancement New feature or request overview Meta-issue for tracking related issues
#14 opened Jun 13, 2024 by nictru Stable transcriptomics
@nictru
1
Implement integration benchmarking using scIB enhancement New feature or request
#13 opened Jun 13, 2024 by nictru Stable transcriptomics
@manogenome
3
Implement LIGER integration enhancement New feature or request
#11 opened Jun 13, 2024 by nictru Stable transcriptomics
ProTip! Exclude everything labeled bug with -label:bug.