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saeyslab
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multinichenetr
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
GNU General Public License v3.0
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No Hex Sticker for MultiNicheNet Package
#95
DarioS
opened
1 week ago
0
Minimum Sample Size Unclear
#94
DarioS
opened
1 month ago
0
make_sample_lr_prod_activity_plots_Omnipath Has No Obvious Ordering
#93
DarioS
opened
1 month ago
0
Gene Pairs Below Threshold Appear in Plot
#92
DarioS
opened
1 month ago
0
Ligand Activity Colour Scale is Visually Unclear
#91
DarioS
opened
1 month ago
0
ligand_target_matrix Creation Needs Copying and Pasting of Large Chunk from Vignette
#90
DarioS
opened
1 month ago
0
Inability to Compactly Plot Multiple Phenotypes
#89
DarioS
opened
2 months ago
2
Process killed (out of memory)
#88
TessaGillett
opened
2 months ago
8
Difference in results between the step by step vignette and multi_nichenet_analysis
#87
APuchkina
closed
2 months ago
1
Receiver cells in differential analysis
#86
Cacti-Jiang
closed
2 months ago
2
Lack of Robustness to Outliers
#85
DarioS
closed
1 month ago
7
Redundant Comparison Shown
#84
DarioS
opened
2 months ago
1
x
#83
Dalhte
closed
2 months ago
1
conditions written in contrasts_oi should be in the contrast column of contrast_tbl column!
#82
Dalhte
closed
3 months ago
1
Problem with download
#81
Dalhte
closed
3 months ago
1
ERROR in less than 3 samples (basic_analysis_steps_MISC_SACL.knit.md). ERROR: get_DE_info_sampleAgnostic
#80
tian6067
opened
3 months ago
5
Condition-specific cell types error at get_DE_info()
#79
chloebazin
closed
2 months ago
5
multi_nichenet_analysis Requires Writing All Combinations of Contrasts
#78
DarioS
closed
3 months ago
2
Installation issue
#77
sidrahmaryam-cyber
closed
3 months ago
4
Older version
#76
shelby2919
closed
3 months ago
1
Cell types abundances in prioritisation score
#75
EspressoKris
closed
3 months ago
1
combine_sender_receiver_de Duplicate Function Causes Error
#74
DarioS
opened
4 months ago
0
Potential namespace conflict with the `summarise` function
#73
Huangy57
opened
4 months ago
0
Error in Interpretable bubble plots
#72
Chenium123
closed
4 months ago
8
Issue with group_prioritization_table being empty
#71
NeuralBind
closed
4 months ago
2
'combine_sender_receiver_de' function exists in nichenetr and multinichenetr
#70
avpatel18
closed
4 months ago
3
installation issue
#69
alexstu
closed
5 months ago
2
Running multinichenet for a single sampleID but 3 groupID
#68
ceciih
closed
5 months ago
1
Prioritization Weights Seem Arbitrary
#67
DarioS
closed
5 months ago
1
min_cells Contradictory Default
#66
DarioS
closed
5 months ago
1
get_abundance_expression_info Slot Extraction is Unclear
#65
DarioS
closed
5 months ago
3
Question senders_oi/receivers_oi and p_adj values
#64
chloebazin
closed
5 months ago
1
Random effects covariates
#63
tomthomas3000
closed
6 months ago
1
Question
#62
nicolebussola
closed
6 months ago
1
Error in `dplyr::inner_join()` when running `multi_nichenet_analysis()`
#61
cgoneill
closed
7 months ago
4
incorporating ATAC-seq data?
#60
wanghlv
closed
7 months ago
2
Interpretation on Ligand Activity in Receptor Value
#59
VivianQM
closed
7 months ago
1
Change font size in make_ligand_activity_target_plot()
#58
AlexCHoppe
closed
7 months ago
1
How to set "contrast_tbl" to reproduce Fig 3a
#57
haotian-zhuang
closed
8 months ago
2
Intercellular regulatory network systems view-graph_plot errored
#56
Chenium123
closed
8 months ago
1
perform_muscat_de_analysis errored
#55
vanessadisela
closed
7 months ago
3
Error in muscat::pbDS
#54
emmmasu
closed
7 months ago
5
Plotting the Ligand-Activity plot for a ligand of interest
#53
pdimitron
closed
5 months ago
3
How do you determine which group the results are up-regulated in? why the circolplot incoherence with heatmap?
#52
SMU-TK-2022
closed
9 months ago
1
Can't install multinichenetr on apple silicon macOS
#51
kaarg2
closed
9 months ago
2
How can I save the high resolution plots generated from multinichenetr with R code?
#50
kaarg2
closed
10 months ago
1
Sample Prioritizations are there, but not getting group prioritizations
#49
pdimitron
closed
10 months ago
2
How to visualize between sample differences in a group?
#48
dhairya02
closed
10 months ago
1
Error when creating contrasts_oi_simplified when running multi_nichenet_analysis_combined
#47
Isabellvse
closed
9 months ago
1
circos plot
#46
inbarsh2
closed
9 months ago
1
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