Showing : singler • reset
0
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3
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53k
views
SingleR Label.Ont
SingleR
written 2.2 years ago by • 0
2
votes
2
replies
1.0k
views
SingleR with multiple single cell references
SingleR scran
9 months ago • updated 7 months ago maltethodberg ▴ 180
0
votes
0
replies
398
views
Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
9 months ago Muhammad • 0
1
vote
1
reply
751
views
segfault when using singleR with Azimuth reference
SingleR
updated 13 months ago by 68k • written 13 months ago by ▴ 760
0
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2
replies
1.1k
views
Validity of SingleR with very small bulk RNAseq reference
SingleR
updated 7 months ago by • 0 • written 15 months ago by ▴ 70
0
votes
1
reply
793
views
When I tried to use the functions from the celldex package to fetch information, I encountered the following error. How can I resolve this?"
celldex SingleR
updated 17 months ago by ★ 5.0k • written 17 months ago by • 0
0
votes
3
replies
1.5k
views
dittobarplot Var error
RNASeq ditto dittoSeq SingleR
written 22 months ago by • 0
1
vote
2
replies
1.8k
views
Reduce single cell experiment size to use as reference for annotation with SingleR
SingleR SingleCellExperiment
23 months ago elgomez • 0
1
vote
4
replies
6.2k
views
JoinLayers function for Seurat Object for annotation with SingleR
SingleR SeuratscRNA
written 23 months ago by ▴ 50
2
votes
4
replies
4.2k
views
SingleR annotation of several slots/patients
SingleR
written 23 months ago by ▴ 50
0
votes
1
reply
791
views
SingleR Book Not Found
SingleR
updated 23 months ago by ▴ 760 • written 23 months ago by • 0
1
vote
2
replies
3.1k
views
trying to add SingleR label to Seurat Object fails
SingleR Seurat
updated 2.0 years ago by ★ 5.0k • written 2.0 years ago by ★ 1.5k
0
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2
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2.0k
views
Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
2.4 years ago Matvii Mykhailichenko • 0
0
votes
4
replies
5.1k
views
error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
seurat singleR
updated 2.4 years ago by • 0 • written 6.0 years ago by • 0
0
votes
0
replies
1.1k
views
what should be the input for SingleR() automatic cell type annotation?
SingleR
2.4 years ago Yijing • 0
1
vote
4
replies
2.3k
views
SingleR and gcc-8.3.0
gcc SingleR
updated 2.6 years ago by ▴ 20 • written 2.7 years ago by ▴ 10
0
votes
1
reply
1.6k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 2.7 years ago by ▴ 760 • written 2.7 years ago by ▴ 10
0
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1
reply
1.1k
views
input for singR function
Seurat_object singe-cell singleR
updated 9 months ago by • 0 • written 2.8 years ago by • 0
0
votes
1
reply
1.3k
views
SingleR error with multiple references
SingleR
updated 2.5 years ago by • 0 • written 3.0 years ago by • 0
1
vote
1
reply
1.2k
views
SingleR using TPM in a bulk RNA seq dataset
SingleR
updated 3.0 years ago by ★ 5.0k • written 3.0 years ago by • 0
0
votes
1
reply
1.9k
views
Error in running: classifySingleR from SingleR package
SingleR SingleCell
updated 3.3 years ago by ★ 5.0k • written 3.3 years ago by • 0
0
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0
replies
1.6k
views
how to calculate similarity between each cluster in scRNA and bulk RNA-seq
SingleR scRNAseq
3.4 years ago Guandong Shang ▴ 40
3
votes
4
replies
2.9k
views
Using SingleR for Single cell annotation with BulkRNASeq
SingleR
3.6 years ago • updated 3.5 years ago rohitsatyam102 ▴ 20
0
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1
reply
1.7k
views
celldex error when downloading reference datasets
celldex SingleR
updated 3.7 years ago by ★ 29k • written 3.8 years ago by • 0
15
votes
13
replies
4.6k
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 4.0 years ago by ▴ 10 • written 4.0 years ago by ▴ 20
0
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1
reply
3.8k
views
Convert SummarizedExperiment to SingleCellExperiment Object
SingleCellExperiment SummarizedExperiment SingleR
updated 4.2 years ago by ★ 5.0k • written 4.2 years ago by • 0
0
votes
2
replies
5.0k
views
Single R-- Error in is.null(rownames(x)) && nrow(x) : invalid 'y' type in 'x && y'
SingleR
updated 3.7 years ago by • 0 • written 4.4 years ago by • 0
2
votes
3
replies
5.6k
views
Error in SingleR, no common genes between 'test' and 'ref'
SingleR
4.4 years ago • updated 4.3 years ago Imtiaz ▴ 10
2
votes
2
replies
4.0k
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 2.0 years ago by ★ 1.5k • written 4.5 years ago by ▴ 10
1
vote
1
reply
2.2k
views
SingleR::mouseRNAseqData Error in UseMethod(filter_)
SingleR ImmgenData() mouseRNAseqData()
updated 4.7 years ago by ★ 6.6k • written 4.7 years ago by • 0
0
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1
reply
3.3k
views
SingleR and SCTransform
SingleR
updated 4.8 years ago by ★ 29k • written 4.8 years ago by ▴ 20
2
votes
3
replies
2.4k
views
SingleCellExperiment and SingleR for identifying T cell subsets
cellsubset SingleR SingleCellExperiment
4.9 years ago achaillon • 0
1
vote
5
replies
2.0k
views
SingleR Error in getMethod(generic, "ANY")
singleR rowMedians getMethod
updated 5.1 years ago by • 0 • written 5.1 years ago by ▴ 10
1
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1
reply
2.1k
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 5.1 years ago by ★ 29k • written 5.1 years ago by • 0
0
votes
6
replies
3.8k
views
Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell singlecellexperiment umap singleR
updated 5.2 years ago by ★ 29k • written 5.2 years ago by ▴ 80
1
vote
3
replies
2.1k
views
Raw counts for reference dataset in single cell rnaseq
single cell celldex singleR
updated 5.2 years ago by ★ 29k • written 5.2 years ago by ▴ 80
0
votes
2
replies
2.1k
views
most correlated genes in SingleR
singlecell singleR
updated 5.2 years ago by ★ 29k • written 5.2 years ago by ▴ 50
0
votes
1
reply
2.4k
views
predicting cell type of clusters using singleR
singleR singlecell
updated 5.3 years ago by ★ 29k • written 5.3 years ago by ▴ 50
0
votes
3
replies
2.9k
views
marker genes in singleR
singleR singlecell singlecellexperiment
updated 5.3 years ago by ★ 29k • written 5.3 years ago by ▴ 50
8
votes
16
replies
9.5k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 5.3 years ago by 4.2k • written 5.3 years ago by ▴ 680
0
votes
1
reply
1.7k
views
pheatmap needs to be manually added to plot heatmaps
singler bug
5.6 years ago muad.abdelhay ▴ 10
0
votes
1
reply
1.9k
views
Assay choice for cell type annotation using SingleR when batch effect present in profile
SingleR MouseGastrulationData
updated 5.7 years ago by ★ 29k • written 5.7 years ago by ▴ 70
2
votes
4
replies
1.9k
views
Impose minimum restrictions on correlations in SingleR
single cell R SingleR
updated 5.8 years ago by ★ 29k • written 5.8 years ago by ▴ 120
1
vote
2
replies
2.3k
views
Error with cell annotation using singleR
SingleR
updated 5.9 years ago by ★ 13k • written 5.9 years ago by ▴ 10
44 results • Page 1 of 1
Recent ...
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Answer: Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single C by ATpoint ★ 5.0k
There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…
Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated by RalphSavage99 • 0
Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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