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saeyslab
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nichenetr
NicheNet: predict active ligand-target links between interacting cells
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`get_expressed_genes` function for sparse matrix
#232
csangara
closed
5 months ago
0
About question in "Perform NicheNet analysis with prioritization" vignette
#231
wang2034
closed
8 months ago
1
Issue 198 fix
#230
csangara
closed
9 months ago
0
Is Peaks a viable default assay of interest>
#229
brandonkim1
closed
9 months ago
0
Error in DiagrammeR::render_graph
#228
fangshansh
closed
8 months ago
2
NicheNet in R
#227
cathalgking
closed
8 months ago
1
Issue in predict_ligand_activities function
#226
Pedramto89
closed
2 months ago
1
Add sf as weak dependency as suggested by sp package
#225
molecules
closed
9 months ago
1
Data question
#224
almaan
closed
9 months ago
2
issue running get_prioritization_tables
#223
iichelhadi
closed
10 months ago
1
Setting multiple covariates and batches in multinichnet
#222
iichelhadi
closed
10 months ago
1
Parameter calculation for ligand activity
#221
Shin8a
closed
10 months ago
2
confused about the DE_table results
#220
sadiexiaoyu
closed
9 months ago
3
error to run prior_table
#219
sadiexiaoyu
closed
9 months ago
3
NicheNet Prioritization with pre-calculated DEGs
#218
AClab-sgarcia
closed
5 months ago
1
Error in calculate_de() function - Prioritization
#217
AClab-sgarcia
closed
11 months ago
2
Mistake in process_table_to_ic for DE_table
#216
sisaberg
closed
11 months ago
1
Error in prepare_ligand_target_visualization function
#215
mdrezaulislam
closed
5 months ago
1
Issue Visualizing a Signaling Network
#214
HJamieJ
closed
11 months ago
1
ligand should be in ligand_target_matrix
#213
johjoon
closed
9 months ago
1
Is differential grouping a must?
#212
pratibha-bioinfo
closed
11 months ago
2
Difference of the prior model between version 1 and version 2
#211
Shin8a
closed
10 months ago
4
Prioritization: prior_table
#210
nea-k
closed
11 months ago
1
use scaled ligand activity or ligand activity to find condition-related ligand?
#209
sadiexiaoyu
closed
9 months ago
2
Error in calculate_niche_de
#208
dbswls0322
closed
9 months ago
1
Questions about the LR-TF database
#207
qijt123
closed
11 months ago
1
generate_prioritization_tables is not working
#206
jcorder316
closed
11 months ago
1
Ligand treatment datasets (rather than just logFC)
#205
j-bac
closed
11 months ago
3
Sender genes from multiple conditions
#204
RazvanMacarie
closed
12 months ago
0
Scaled ligand activity and scales for plots
#203
mxs1637
closed
9 months ago
3
install packages
#202
MWT122122
closed
9 months ago
2
NicheNet v2
#201
csangara
closed
1 year ago
0
Customize Color of ligands in Circle Plot
#200
maxc2020
closed
11 months ago
4
how to predict target gene expression
#199
adesalegn
closed
11 months ago
3
DE Sender Expression Ident Error
#198
jchincheong
closed
2 months ago
9
using same receiver cluster for multiple niches
#197
EDePasquale
closed
9 months ago
1
Requesting Guidance on Obtaining Log2FC Scores for Individual Ligand-Receptor Pairs
#196
macelik
closed
11 months ago
1
Prioritization scheme
#195
csangara
closed
1 year ago
0
Replacing Gene regulatory network
#194
anthonybejjani
closed
11 months ago
1
assess_rf_class_probabilities() and calculate_fraction_top_predicted_fisher()
#193
anidj
closed
11 months ago
1
How to explain the negative ligand activity?
#192
Lin13432
closed
1 year ago
1
Is the prior model/ligand-target weight matrix available for prediction using logfoldchang?
#191
Lin13432
closed
1 year ago
1
all target gene probability score predictions have the same value
#190
JasperNies
closed
1 year ago
1
How to use this with Bulk RNA seq data from two different cell types?
#189
BhavanaNayer
closed
5 months ago
7
Interpretation potential scores
#188
joan-yanqiong
closed
1 year ago
1
Is there any mouse ligand and receptor annotation set?
#187
hwoihann
closed
1 year ago
1
DeSeq2 Object
#186
macelik
closed
1 year ago
1
Get_expressed_genes error
#185
vwtlin
closed
11 months ago
1
Differential expression SCT - issue #163 follow up
#184
anaccsilva
closed
9 months ago
1
Error in DE analysis of each sender cell type
#183
sidrahmaryam-cyber
closed
11 months ago
2
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