livnatje DIALOGUE issues

livnatje / DIALOGUE

DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map the cell transcriptome as a function of its environment.

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Clarification on PCs input data to generate cell types

#50 edg1983 opened 1 month ago
2
Run with continuous phenotypes

#49 edg1983 opened 2 months ago
2
call combn with namespace utils to avoid conflict with combinat

#48 jsim91 opened 3 months ago
1
Confounders, cellQ

#47 soniyalama opened 7 months ago
0
Could you provide historical versions?

#46 Tianran1998 opened 8 months ago
0
colnames for X required, but was not clear to me

#45 SabrinaRichter opened 8 months ago
0
Issue with t() for sparse tpm matrices

#44 SabrinaRichter opened 8 months ago
2
Trouble running DIALOGUE Example

#43 axelalmet closed 8 months ago
12
Code for putative cell–cell interactions mediated by ligand–receptor binding

#42 rseurinc opened 1 year ago
0
qcAv samples use dataframe

#41 wangwl opened 1 year ago
0
incorrect number of dimensions

#40 wangwl closed 1 year ago
0
The link 'See the tutorial for more details' does not lead to tutorials

#39 yao50985098 closed 1 year ago
3
Share the code for the figures published in the NBT

#38 xiangrong7 closed 8 months ago
3
Error in DIALOGUE1(rA = rA, k = k, main = main, results.dir = results.dir, : Cannot run DIALOGUE with less than 5 samples.

#37 bmill3r opened 1 year ago
0
Definitions for arguments in `DIALOGUE.run`

#36 bmill3r opened 1 year ago
0
average.mat.rows: Error in laply(ids.u, function(x) { : could not find function "laply"

#35 bmill3r closed 1 year ago
4
Example code to reproduce results of spatial dataset analyses

#34 bmill3r closed 1 year ago
3
Issues in anova step

#33 russellkune opened 1 year ago
0
How to validate the MCPs expression

#32 Xxhongs closed 1 year ago
5
Impossible to reproduce the code

#31 elissonlopes closed 1 year ago
5
scRNA data cell number limit

#30 zhangqi234 closed 1 year ago
2
selection of sparse canonical variates (w_1, ..., w_N)

#29 yugeji opened 2 years ago
5
Trouble finishing MCP analysis with Seurat input

#28 VNurm closed 1 year ago
3
Tutorial Example Issue: Error in beanplot : could not find function "beanplot"

#27 98xy closed 2 years ago
2
Warning Messages during run

#26 pakiessling closed 2 years ago
2
make.cell.type: "long vectors not supported yet" error

#25 pakiessling closed 2 years ago
1
Temp plotting error

#24 majorkazer closed 2 years ago
2
Nanostring SMI analysis in the paper

#23 ptdtan closed 1 year ago
3
how to extract necessary parameters from seurat object into dialogue?

#22 Wulin-Tan closed 2 years ago
5
No MCPs identified for these cell types

#21 jfckkiu closed 2 years ago
7
I see `..` comparisons in the MCPs output

#20 abs51295 closed 2 years ago
2
MCP don't have gene

#19 jisnoalia closed 2 years ago
5
Error in quantile.default(x, 1 - cap) : missing values and NaN's not allowed if 'na.rm' is FALSE

#18 cubense opened 2 years ago
3
10x data format

#17 zhangch365 closed 2 years ago
0
DIALOGUE and batch correction

#16 kanefos closed 2 years ago
2
10X scRNA-seq in DIALOGUE

#15 zhangch365 closed 2 years ago
8
Tutorial Example Issue

#14 vestalgd closed 2 years ago
2
changes to path results.dir

#13 bio-la closed 2 years ago
0
Input data format

#12 bwang1324 closed 2 years ago
13
Interfacing with Seurat

#11 learning-MD closed 2 years ago
4
Issue with get.abundant function in DIALOGUE1 with abn.c=15

#10 DavidB-XI closed 2 years ago
5
Inconsistency with if statement check in DIALOGUE.cell.type.R

#9 DavidB-XI closed 2 years ago
3
license

#8 Zethson closed 2 years ago
2
can't replicate MCP results fig4 paper

#7 bio-la closed 2 years ago
6
Update DIALOGUE.plot.R

#6 tessadgreen opened 3 years ago
1
t.test.groups and t.test.mat not included

#5 tessadgreen closed 2 years ago
2
A few issues when trying to start using method

#4 tessadgreen closed 3 years ago
5
NA reported for `phenoZ`

#3 yugeji closed 2 years ago
2
allowed labels for `DIALOGUE.run(pheno=)`

#2 yugeji closed 2 years ago
3
Trouble running main Dialogue function

#1 amr15 closed 2 years ago
2