Showing : SingleR • reset
15
votes
13
replies
3.0k
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 2.4 years ago by ▴ 10 • written 2.5 years ago by ▴ 20
8
votes
16
replies
6.2k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 3.7 years ago by 3.8k • written 3.7 years ago by ▴ 660
3
votes
4
replies
1.7k
views
Using SingleR for Single cell annotation with BulkRNASeq
SingleR
2.0 years ago • updated 23 months ago rohitsatyam102 ▴ 20
2
votes
2
replies
2.5k
views
After having the output from SingleR for cell type annotation, what's the next step to assign the cell type to each cluster
SingleCellSignalR SingleCellWorkflow SingleR
updated 5 months ago by ★ 1.5k • written 3.0 years ago by ▴ 10
2
votes
4
replies
1.3k
views
Impose minimum restrictions on correlations in SingleR
single cell R SingleR
updated 4.2 years ago by ★ 28k • written 4.2 years ago by ▴ 120
2
votes
3
replies
3.6k
views
Error in SingleR, no common genes between 'test' and 'ref'
SingleR
2.8 years ago • updated 2.7 years ago Imtiaz ▴ 10
2
votes
4
replies
1.2k
views
SingleR annotation of several slots/patients
SingleR
written 4 months ago by ▴ 40
1
vote
5
replies
1.5k
views
SingleR Error in getMethod(generic, "ANY")
singleR rowMedians getMethod
updated 3.5 years ago by • 0 • written 3.5 years ago by ▴ 10
1
vote
2
replies
1.5k
views
Error with cell annotation using singleR
SingleR
updated 4.3 years ago by ★ 13k • written 4.3 years ago by • 0
1
vote
3
replies
1.3k
views
Raw counts for reference dataset in single cell rnaseq
single cell celldex singleR
updated 3.7 years ago by ★ 28k • written 3.7 years ago by ▴ 80
1
vote
1
reply
1.3k
views
Does SingleR return output for every cell it's given or only those that it can provide an annotation for?
SingleR Single Cell
updated 3.6 years ago by ★ 28k • written 3.6 years ago by • 0
1
vote
3
replies
1.5k
views
SingleCellExperiment and SingleR for identifying T cell subsets
cellsubset SingleR SingleCellExperiment
3.4 years ago • updated 3.3 years ago achaillon • 0
1
vote
1
reply
1.5k
views
SingleR::mouseRNAseqData Error in UseMethod(filter_)
SingleR ImmgenData() mouseRNAseqData()
updated 3.2 years ago by ★ 6.5k • written 3.2 years ago by • 0
1
vote
1
reply
704
views
SingleR using TPM in a bulk RNA seq dataset
SingleR
updated 17 months ago by ★ 4.0k • written 17 months ago by • 0
1
vote
2
replies
920
views
Reduce single cell experiment size to use as reference for annotation with SingleR
SingleR SingleCellExperiment
4 months ago elgomez • 0
1
vote
2
replies
716
views
trying to add SingleR label to Seurat Object fails
SingleR Seurat
updated 5 months ago by ★ 4.0k • written 5 months ago by ★ 1.5k
1
vote
4
replies
1.2k
views
SingleR and gcc-8.3.0
gcc SingleR
updated 12 months ago by ▴ 10 • written 13 months ago by ▴ 10
1
vote
4
replies
1.6k
views
JoinLayers function for Seurat Object for annotation with SingleR
SingleR SeuratscRNA
written 4 months ago by ▴ 40
0
votes
1
reply
1000
views
Error in running: classifySingleR from SingleR package
SingleR SingleCell
updated 20 months ago by ★ 4.0k • written 20 months ago by • 0
0
votes
1
reply
2.6k
views
Convert SummarizedExperiment to SingleCellExperiment Object
SingleCellExperiment SummarizedExperiment SingleR
updated 2.7 years ago by ★ 4.0k • written 2.7 years ago by • 0
0
votes
1
reply
300
views
SingleR Book Not Found
SingleR
updated 4 months ago by ▴ 740 • written 4 months ago by • 0
0
votes
1
reply
715
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 13 months ago by ▴ 740 • written 13 months ago by ▴ 10
0
votes
2
replies
3.6k
views
Single R-- Error in is.null(rownames(x)) && nrow(x) : invalid 'y' type in 'x && y'
SingleR
updated 2.1 years ago by • 0 • written 2.8 years ago by • 0
0
votes
0
replies
519
views
what should be the input for SingleR() automatic cell type annotation?
SingleR
10 months ago Yijing • 0
0
votes
0
replies
464
views
input for singR function
Seurat_object singe-cell singleR
14 months ago Paria • 0
0
votes
3
replies
448
views
dittobarplot Var error
RNASeq ditto dittoSeq SingleR
written 3 months ago by • 0
0
votes
0
replies
944
views
how to calculate similarity between each cluster in scRNA and bulk RNA-seq
SingleR scRNAseq
21 months ago Guandong Shang ▴ 40
0
votes
4
replies
3.6k
views
error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
seurat singleR
updated 10 months ago by • 0 • written 4.4 years ago by • 0
0
votes
2
replies
880
views
Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
9 months ago Matvii Mykhailichenko • 0
0
votes
3
replies
2.0k
views
marker genes in singleR
singleR singlecell singlecellexperiment
updated 3.7 years ago by ★ 28k • written 3.7 years ago by ▴ 40
0
votes
2
replies
1.5k
views
most correlated genes in SingleR
singlecell singleR
updated 3.7 years ago by ★ 28k • written 3.7 years ago by ▴ 40
0
votes
4
replies
3.5k
views
SingleR Label.Ont
SingleR
updated 7 days ago by • 0 • written 7 months ago by • 0
0
votes
6
replies
2.6k
views
Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell singlecellexperiment umap singleR
updated 3.6 years ago by ★ 28k • written 3.6 years ago by ▴ 80
0
votes
1
reply
1.2k
views
pheatmap needs to be manually added to plot heatmaps
singler bug
4.0 years ago muad.abdelhay ▴ 10
0
votes
1
reply
771
views
SingleR error with multiple references
SingleR
updated 11 months ago by • 0 • written 17 months ago by • 0
0
votes
1
reply
1.9k
views
SingleR and SCTransform
SingleR
updated 3.2 years ago by ★ 28k • written 3.2 years ago by ▴ 20
0
votes
1
reply
992
views
Assay choice for cell type annotation using SingleR when batch effect present in profile
SingleR MouseGastrulationData
updated 4.1 years ago by ★ 28k • written 4.1 years ago by ▴ 70
0
votes
1
reply
923
views
celldex error when downloading reference datasets
celldex SingleR
updated 2.2 years ago by ★ 28k • written 2.2 years ago by • 0
0
votes
1
reply
1.4k
views
predicting cell type of clusters using singleR
singleR singlecell
updated 3.7 years ago by ★ 28k • written 3.7 years ago by ▴ 40
39 results • Page 1 of 1
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Answer: minfi::read.metharray.exp by Basti ▴ 770
Could you show `list.files("~/Users/clarachretienneau/Desktop/clock epigenetic/PJ1209132_ScanData")` ? There may be a problem related to th…
Comment: DESeq2 - dispersion estimation when there is none by WardDeb • 0
Thank you for the pointers, I'll revert back again to the method section of the paper. As for the negative relationship of the estimated di…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by Gayatri • 0
Hello James, How to generate the db? By running the makeOrgPackageFromNCBI() command? I have tried doing that, first by just deleting the …
Answer: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by Tim Peters ▴ 170
Hi Jose and Russ, Apologies to Jose for not seeing this earlier. Sometimes the loess smoother in the bottom panel will throw this error …
Comment: Trying to use enrichGO by fernanda.backsouza • 0
Sure, I changed it but still NULL G0 <- enrichGO( gene = ortologos_filtrados$Gene.ID, OrgDb = org.Cs.eg.db, keyType = "ENTREZID",…
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Answer: DESeq2 - dispersion estimation when there is none
Comment: Cannabis and KEGGgraph
Comment: Cannabis and KEGGgraph
Answer: Cannabis and KEGGgraph
Answer: Differentially expressed genes in monocle pseudotime
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