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buenrostrolab
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FigR
Functional Inference of Gene Regulation
https://buenrostrolab.github.io/FigR/
MIT License
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Is there a vignette available on how to preprocess scRNA and scATAC seq data that is used as an input for FigR analysis?
#45
yojetsharma
opened
1 week ago
0
runGenePeakcorr Memory Issues
#44
micahtratt
opened
2 weeks ago
2
Bulk ATAC and RNAseq data
#43
lucalvizi
opened
3 months ago
1
Genome Build Supported
#42
sylestiel
opened
4 months ago
0
problem with pairCells function with a large data
#41
revolvefire
opened
4 months ago
0
Error installing FigR
#40
acaulier
opened
6 months ago
1
Error when running runGenePeakcorr
#39
klgoss
opened
6 months ago
4
ERROR: dependency ‘BuenColors’ is not available for package ‘FigR’
#38
ulloaa
closed
6 months ago
3
Relevance of dorcK value
#37
valentinaOpazo
closed
6 months ago
2
Alternative for plotfigRNetwork or stretch network to reduce overlap
#36
JoreVW
closed
7 months ago
2
Extracting Dataset specific information from merged analysis
#35
sylestiel
opened
8 months ago
1
How to get cisBP_mouse_pfms_2021.rds in runFigRGRN function?
#34
Rivers-Lee
opened
10 months ago
1
Extraction of a matrix object of cisTopic probability scores
#33
Dalhte
opened
12 months ago
0
runFigRGRN out of memory
#32
zhijunyuu
closed
10 months ago
3
should I redo dimensional reduction, find K nearest neighbors for subset cells?
#31
yjchen1201
closed
12 months ago
2
Error in pairCells function
#30
LalicJ
opened
1 year ago
4
Determine pairs through optimized bipartite matching ..
#29
OMIC-coding
opened
1 year ago
16
how to solve the problem that memeory usage is too large
#28
chenc327
opened
1 year ago
0
Should dimensionality reduction be repeated for each subset of a dataset?
#27
compbiologist
opened
1 year ago
3
Error in plotfigRNetwork
#26
LalicJ
closed
1 year ago
2
no plot showing after plotfigRNetwork()
#25
yjchen1201
closed
1 year ago
2
Removing Rik genes from figR.d listing
#24
sylestiel
opened
1 year ago
10
Does the RNAmatrix need to be scaled?
#23
sylestiel
opened
1 year ago
0
runGenePeakcorr error: unable to find an inherited method for function ‘letterFrequency’ for signature ‘"DNAStringSetList"’
#22
fh34
opened
1 year ago
2
Error in runGenePeakcorr
#21
Genki-YAN
opened
1 year ago
2
Altering the aesthetics of plotfigRNetwork()
#20
sylestiel
opened
1 year ago
6
How can I generate the cellKNN.mat?
#19
sylestiel
closed
1 year ago
11
Failure to execute runGenePeakcorr
#18
sylestiel
closed
1 year ago
5
Run with cattle data
#17
liyang24
opened
1 year ago
0
runGenePeakcorr error: the condition has length > 1
#16
lizakulaeva
opened
1 year ago
3
Obtaining cisAssign attributes on multiome dataset
#15
sylestiel
closed
1 year ago
1
Starting from an independent dataset
#14
lingfeiwang
closed
1 year ago
5
Going from CellRanger output into FigR
#13
sylestiel
closed
12 months ago
2
Error in filter(., dist == min(dist)) : ... use stats::filter and dplyr::filter instead
#12
perezja
closed
1 year ago
2
Error in library(optmatch) : there is no package called 'optmatch'
#11
perezja
closed
1 year ago
1
Unable to install FigR
#10
sylestiel
closed
1 year ago
2
runGenePeakcorr - Requesting ability to specify updated genomes (such as mm39)
#9
iilyashov
opened
1 year ago
4
runGenePeakcorr,Using the genomes of other species
#8
liyang24
opened
1 year ago
4
About installation
#7
pocession
closed
1 year ago
2
Recommend explicity qualifying namespaces
#6
riguyer
closed
1 year ago
1
Extreme long processing time for runGenePeakcorr function
#5
bellayqian
closed
1 year ago
2
long vectors not supported for PairCells
#4
sallyqus
opened
1 year ago
4
Finding cell type specificity
#3
waltno
closed
1 year ago
1
worker initialization failed: there is no package called ‘FigR’
#2
sallyqus
closed
1 year ago
3
Possible bug in runFigRGRN
#1
xibarrasoria
closed
2 years ago
1