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welch-lab
/
liger
R package for integrating and analyzing multiple single-cell datasets
GNU General Public License v3.0
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How to split sample of function (plotByDatasetAndCluster)
#268
Jingle0814
closed
1 year ago
2
Genes and promoters information for Mouse species
#267
elhaam
closed
1 year ago
2
Vignettes for 10x Multiome data?
#266
tanlongzhi
closed
2 years ago
4
Integrate multiomics RNA and ATAC data generates trivial all-zero latent values
#265
elhaam
opened
2 years ago
3
Error in Integrating multiomics RNA and ATAC data after removing one cell-type from RNAseq data
#264
elhaam
opened
2 years ago
3
Missing value OptimizeALS
#263
mtegtmey
opened
2 years ago
4
How to transfer cell labels from one dataset to another dataset?
#262
Telogen
closed
2 years ago
2
Error in scaleNotCenterFast(t(object@norm.data[[i]][object@var.genes, : Not an S4 object.
#261
Muchmorepig
closed
2 years ago
1
Treating scRNAseq results as bulk RNAseq
#260
robin1-2
closed
1 year ago
1
comparing stim vs ctrl datasets of a cluster
#259
robin1-2
closed
10 months ago
1
selectGenes No genes were selected
#258
scarlettcanny0629
closed
5 months ago
1
Links for hg19_promoters.bed
#257
trandoanduyhai
closed
2 years ago
2
UINMF imput format?
#256
rLannes
closed
2 years ago
1
Filtering Out Empties, Multiplets, Broken Cells etc
#255
robin1-2
closed
2 years ago
0
*** caught segfault *** error when running quantile_norm function
#254
ProphetDarkland
closed
5 months ago
3
Combining sequencing platforms - 10x and Cel-seq2 - Error in if (trim > 0 && n) { : missing value where TRUE/FALSE needed
#253
reberya
opened
2 years ago
2
Bug in getProportionMito
#252
jsodicoff
opened
2 years ago
0
Integration of multiple scATAC samples
#251
rLannes
opened
2 years ago
0
strange behavior with selectGenes() for UINMF
#250
schroeme
closed
2 years ago
2
get batch corrected matrix from Seurat object
#249
ceesu
closed
5 months ago
2
Data download link seems invalid
#248
GuangshengZ
closed
2 years ago
2
suggestNewK and suggestNewLambda missing in rliger 1.0.0?
#247
kobeho24
closed
10 months ago
2
scRNAseq Integration with CODEX Data
#246
delucalab
closed
10 months ago
1
online_iNMF code check
#245
niehu2018
closed
2 years ago
3
online_iNMF non-conformable arrays
#244
niehu2018
closed
2 years ago
1
scaleNotCenter error in online_iNMF method
#243
niehu2018
closed
2 years ago
1
Raster plotGene
#242
samuel-marsh
closed
2 years ago
4
Problem with dependency check with psych_2.1.9
#241
revelle
closed
2 years ago
0
Data download link for scRNA-seq + scATAC-seq integration tutorial seems to have expired
#240
Jeff1995
closed
2 years ago
3
Can't exclude factors from louvainCluster
#239
ksyoungnm
closed
10 months ago
3
Problem with package name change: load older liger object
#238
samuel-marsh
closed
10 months ago
5
error in online_iNMF after cells removed from scaleNotCenter
#237
emmanuelaaaaa
closed
3 years ago
6
minor bug in scaleNotCenter
#236
emmanuelaaaaa
closed
3 years ago
2
optimizeALS fails due to high CPU requirements
#235
nfancy
closed
2 years ago
1
How to include unshared features other than genes when doing uINMF?
#234
sheetalgiri
closed
3 years ago
1
How to format data as .h5 file?
#233
smorabit
closed
2 years ago
2
Dose it have any effect on optimizeALS if the scale.data have negative values？
#232
WellJoea
closed
3 years ago
2
Fix subsetLiger removing cell.data and reporting 0 cells when no clustering available.
#231
derpylz
opened
3 years ago
1
Error liger with seuratwrapper ( 'optimizeALS' is not an exported object from 'namespace:liger')
#230
ahmedibatta
closed
3 years ago
17
KL divergence is not plateauing
#229
nfancy
closed
3 years ago
3
suggestK function could not work with seurat object
#228
LeoCao-X
closed
3 years ago
2
Considering duplicated reads in scATAC tutorial?
#227
frankligy
closed
3 years ago
2
How to use loom file in LIGER
#226
HelloWorldLTY
closed
3 years ago
1
Revert "U algorithm"
#225
Akriebs
opened
3 years ago
0
the error with liger
#224
honghh2018
opened
3 years ago
12
Feasibility of projecting Mutant samples onto cell space computed on WT samples
#223
fbrundu
closed
3 years ago
1
Invalid character indexing when preparing dataset for projection
#222
fbrundu
closed
3 years ago
3
U algorithm
#221
cvanderaa
closed
3 years ago
4
rename clusters to celltypes
#220
deevdevil88
closed
3 years ago
1
Is there python version for Liger
#219
HelloWorldLTY
closed
3 years ago
4
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