Showing : singler • reset
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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 22 days ago by ★ 4.2k • written 24 days ago by • 0
0
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5
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23k
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SingleR Label.Ont
SingleR
updated 4 days ago by • 0 • written 9 months ago by • 0
0
votes
3
replies
669
views
dittobarplot Var error
RNASeq ditto dittoSeq SingleR
written 5 months ago by • 0
1
vote
2
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1.0k
views
Reduce single cell experiment size to use as reference for annotation with SingleR
SingleR SingleCellExperiment
6 months ago elgomez • 0
1
vote
4
replies
2.2k
views
JoinLayers function for Seurat Object for annotation with SingleR
SingleR SeuratscRNA
written 6 months ago by ▴ 50
2
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4
replies
1.7k
views
SingleR annotation of several slots/patients
SingleR
written 7 months ago by ▴ 50
0
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1
reply
377
views
SingleR Book Not Found
SingleR
updated 7 months ago by ▴ 740 • written 7 months ago by • 0
1
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2
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1.1k
views
trying to add SingleR label to Seurat Object fails
SingleR Seurat
updated 7 months ago by ★ 4.2k • written 7 months ago by ★ 1.5k
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2
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1.1k
views
Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
12 months ago Matvii Mykhailichenko • 0
0
votes
4
replies
3.8k
views
error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
seurat singleR
updated 12 months ago by • 0 • written 4.6 years ago by • 0
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0
replies
618
views
what should be the input for SingleR() automatic cell type annotation?
SingleR
13 months ago Yijing • 0
1
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4
replies
1.4k
views
SingleR and gcc-8.3.0
gcc SingleR
updated 15 months ago by ▴ 10 • written 15 months ago by ▴ 10
0
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1
reply
833
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 15 months ago by ▴ 740 • written 15 months ago by ▴ 10
0
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0
replies
518
views
input for singR function
Seurat_object singe-cell singleR
17 months ago Paria • 0
0
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1
reply
874
views
SingleR error with multiple references
SingleR
updated 13 months ago by • 0 • written 19 months ago by • 0
1
vote
1
reply
787
views
SingleR using TPM in a bulk RNA seq dataset
SingleR
updated 20 months ago by ★ 4.2k • written 20 months ago by • 0
0
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1
reply
1.4k
views
Error in running: classifySingleR from SingleR package
SingleR SingleCell
updated 23 months ago by ★ 4.2k • written 23 months ago by • 0
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0
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1.0k
views
how to calculate similarity between each cluster in scRNA and bulk RNA-seq
SingleR scRNAseq
24 months ago Guandong Shang ▴ 40
3
votes
4
replies
1.9k
views
Using SingleR for Single cell annotation with BulkRNASeq
SingleR
2.2 years ago • updated 2.1 years ago rohitsatyam102 ▴ 20
0
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1
reply
1.0k
views
celldex error when downloading reference datasets
celldex SingleR
updated 2.4 years ago by ★ 28k • written 2.4 years ago by • 0
15
votes
13
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3.2k
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 2.6 years ago by ▴ 10 • written 2.7 years ago by ▴ 20
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1
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2.8k
views
Convert SummarizedExperiment to SingleCellExperiment Object
SingleCellExperiment SummarizedExperiment SingleR
updated 2.9 years ago by ★ 4.2k • written 2.9 years ago by • 0
0
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2
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3.8k
views
Single R-- Error in is.null(rownames(x)) && nrow(x) : invalid 'y' type in 'x && y'
SingleR
updated 2.3 years ago by • 0 • written 3.0 years ago by • 0
2
votes
3
replies
3.9k
views
Error in SingleR, no common genes between 'test' and 'ref'
SingleR
3.0 years ago • updated 2.9 years ago Imtiaz ▴ 10
2
votes
2
replies
2.8k
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 7 months ago by ★ 1.5k • written 3.2 years ago by ▴ 10
1
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1
reply
1.6k
views
SingleR::mouseRNAseqData Error in UseMethod(filter_)
SingleR ImmgenData() mouseRNAseqData()
updated 3.4 years ago by ★ 6.5k • written 3.4 years ago by • 0
0
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1
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2.1k
views
SingleR and SCTransform
SingleR
updated 3.4 years ago by ★ 28k • written 3.4 years ago by ▴ 20
2
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3
replies
1.7k
views
SingleCellExperiment and SingleR for identifying T cell subsets
cellsubset SingleR SingleCellExperiment
3.6 years ago • updated 3.5 years ago achaillon • 0
1
vote
5
replies
1.6k
views
SingleR Error in getMethod(generic, "ANY")
singleR rowMedians getMethod
updated 3.7 years ago by • 0 • written 3.7 years ago by ▴ 10
1
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1
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1.4k
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 3.8 years ago by ★ 28k • written 3.8 years ago by • 0
0
votes
6
replies
2.8k
views
Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell singlecellexperiment umap singleR
updated 3.8 years ago by ★ 28k • written 3.8 years ago by ▴ 80
1
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3
replies
1.4k
views
Raw counts for reference dataset in single cell rnaseq
single cell celldex singleR
updated 3.8 years ago by ★ 28k • written 3.8 years ago by ▴ 80
0
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2
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1.6k
views
most correlated genes in SingleR
singlecell singleR
updated 3.9 years ago by ★ 28k • written 3.9 years ago by ▴ 50
0
votes
1
reply
1.5k
views
predicting cell type of clusters using singleR
singleR singlecell
updated 3.9 years ago by ★ 28k • written 3.9 years ago by ▴ 50
0
votes
3
replies
2.1k
views
marker genes in singleR
singleR singlecell singlecellexperiment
updated 3.9 years ago by ★ 28k • written 3.9 years ago by ▴ 50
8
votes
16
replies
6.7k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 3.9 years ago by 3.9k • written 3.9 years ago by ▴ 660
0
votes
1
reply
1.3k
views
pheatmap needs to be manually added to plot heatmaps
singler bug
4.2 years ago muad.abdelhay ▴ 10
0
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1
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1.1k
views
Assay choice for cell type annotation using SingleR when batch effect present in profile
SingleR MouseGastrulationData
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 70
2
votes
4
replies
1.4k
views
Impose minimum restrictions on correlations in SingleR
single cell R SingleR
updated 4.4 years ago by ★ 28k • written 4.4 years ago by ▴ 120
1
vote
2
replies
1.6k
views
Error with cell annotation using singleR
SingleR
updated 4.5 years ago by ★ 13k • written 4.5 years ago by ▴ 10
40 results • Page 1 of 1
Recent ...
Replies
Comment: Ranking the GSEA Results by Lluís Revilla Sancho ▴ 730
You can have the ranking without the cutoff. If you don't keep any gene set after the cutoff then there is nothing to rank as you said, so…
Answer: Create a Graph w/ Only the Genes Interaction by Antonio • 0
Thank you all, I solved my issue by creating a for loop. Cheers!
Comment: Ranking the GSEA Results by alserg ▴ 270
Apparently, it sends a notification to the developer on a new message after the tags were updated :) but not the change of tags itself
Comment: Ranking the GSEA Results by alserg ▴ 270
Where did you see ranking of genes by `log2FC * (-log10 p-value)`? I don't think I ever saw one and not sure what it should achieve. Aren't…
Comment: Trouble Installing DADA2 (warning: R new user) by shepherl 3.9k
As far as this ERROR for Bioc requires R version, Bioconductor is closely tied to an R release. Depending if you tried to use a premade s…
Votes
Comment: Ranking the GSEA Results
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
Comment: How to get the DMR?
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
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