Showing : singler • reset
1
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276
views
segfault when using singleR with Azimuth reference
SingleR
updated 11 weeks ago by 67k • written 11 weeks ago by ▴ 760
0
votes
3
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44k
views
SingleR Label.Ont
SingleR
written 15 months ago by • 0
0
votes
1
reply
561
views
Validity of SingleR with very small bulk RNAseq reference
SingleR
updated 4 months ago by ★ 4.6k • written 4 months ago by ▴ 70
0
votes
1
reply
541
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 6 months ago by ★ 4.6k • written 6 months ago by • 0
0
votes
3
replies
1.1k
views
dittobarplot Var error
RNASeq ditto dittoSeq SingleR
written 11 months ago by • 0
1
vote
2
replies
1.3k
views
Reduce single cell experiment size to use as reference for annotation with SingleR
SingleR SingleCellExperiment
12 months ago elgomez • 0
1
vote
4
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3.6k
views
JoinLayers function for Seurat Object for annotation with SingleR
SingleR SeuratscRNA
written 12 months ago by ▴ 50
2
votes
4
replies
2.7k
views
SingleR annotation of several slots/patients
SingleR
written 12 months ago by ▴ 50
0
votes
1
reply
526
views
SingleR Book Not Found
SingleR
updated 12 months ago by ▴ 740 • written 12 months ago by • 0
1
vote
2
replies
1.7k
views
trying to add SingleR label to Seurat Object fails
SingleR Seurat
updated 13 months ago by ★ 4.6k • written 13 months ago by ★ 1.5k
0
votes
2
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1.5k
views
Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
18 months ago Matvii Mykhailichenko • 0
0
votes
4
replies
4.3k
views
error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
seurat singleR
updated 18 months ago by • 0 • written 5.1 years ago by • 0
0
votes
0
replies
814
views
what should be the input for SingleR() automatic cell type annotation?
SingleR
18 months ago Yijing • 0
1
vote
4
replies
1.8k
views
SingleR and gcc-8.3.0
gcc SingleR
updated 21 months ago by ▴ 20 • written 21 months ago by ▴ 10
0
votes
1
reply
1.1k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 21 months ago by ▴ 740 • written 21 months ago by ▴ 10
0
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0
replies
672
views
input for singR function
Seurat_object singe-cell singleR
23 months ago Paria • 0
0
votes
1
reply
1.1k
views
SingleR error with multiple references
SingleR
updated 19 months ago by • 0 • written 2.1 years ago by • 0
1
vote
1
reply
959
views
SingleR using TPM in a bulk RNA seq dataset
SingleR
updated 2.1 years ago by ★ 4.6k • written 2.1 years ago by • 0
0
votes
1
reply
1.6k
views
Error in running: classifySingleR from SingleR package
SingleR SingleCell
updated 2.4 years ago by ★ 4.6k • written 2.4 years ago by • 0
0
votes
0
replies
1.3k
views
how to calculate similarity between each cluster in scRNA and bulk RNA-seq
SingleR scRNAseq
2.5 years ago Guandong Shang ▴ 40
3
votes
4
replies
2.3k
views
Using SingleR for Single cell annotation with BulkRNASeq
SingleR
2.7 years ago • updated 2.6 years ago rohitsatyam102 ▴ 20
0
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1
reply
1.3k
views
celldex error when downloading reference datasets
celldex SingleR
updated 2.8 years ago by ★ 28k • written 2.9 years ago by • 0
15
votes
13
replies
3.7k
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 3.1 years ago by ▴ 10 • written 3.1 years ago by ▴ 20
0
votes
1
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3.2k
views
Convert SummarizedExperiment to SingleCellExperiment Object
SingleCellExperiment SummarizedExperiment SingleR
updated 3.3 years ago by ★ 4.6k • written 3.3 years ago by • 0
0
votes
2
replies
4.4k
views
Single R-- Error in is.null(rownames(x)) && nrow(x) : invalid 'y' type in 'x && y'
SingleR
updated 2.8 years ago by • 0 • written 3.5 years ago by • 0
2
votes
3
replies
4.7k
views
Error in SingleR, no common genes between 'test' and 'ref'
SingleR
3.5 years ago • updated 3.4 years ago Imtiaz ▴ 10
2
votes
2
replies
3.2k
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 13 months ago by ★ 1.5k • written 3.6 years ago by ▴ 10
1
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1
reply
1.9k
views
SingleR::mouseRNAseqData Error in UseMethod(filter_)
SingleR ImmgenData() mouseRNAseqData()
updated 3.8 years ago by ★ 6.6k • written 3.8 years ago by • 0
0
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1
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2.6k
views
SingleR and SCTransform
SingleR
updated 3.9 years ago by ★ 28k • written 3.9 years ago by ▴ 20
2
votes
3
replies
1.9k
views
SingleCellExperiment and SingleR for identifying T cell subsets
cellsubset SingleR SingleCellExperiment
4.0 years ago achaillon • 0
1
vote
5
replies
1.7k
views
SingleR Error in getMethod(generic, "ANY")
singleR rowMedians getMethod
updated 4.2 years ago by • 0 • written 4.2 years ago by ▴ 10
1
vote
1
reply
1.7k
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 4.2 years ago by ★ 28k • written 4.2 years ago by • 0
0
votes
6
replies
3.1k
views
Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell singlecellexperiment umap singleR
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 80
1
vote
3
replies
1.6k
views
Raw counts for reference dataset in single cell rnaseq
single cell celldex singleR
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 80
0
votes
2
replies
1.7k
views
most correlated genes in SingleR
singlecell singleR
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 50
0
votes
1
reply
1.9k
views
predicting cell type of clusters using singleR
singleR singlecell
updated 4.4 years ago by ★ 28k • written 4.4 years ago by ▴ 50
0
votes
3
replies
2.4k
views
marker genes in singleR
singleR singlecell singlecellexperiment
updated 4.4 years ago by ★ 28k • written 4.4 years ago by ▴ 50
8
votes
16
replies
8.0k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 4.4 years ago by 4.1k • written 4.4 years ago by ▴ 660
0
votes
1
reply
1.4k
views
pheatmap needs to be manually added to plot heatmaps
singler bug
4.7 years ago muad.abdelhay ▴ 10
0
votes
1
reply
1.3k
views
Assay choice for cell type annotation using SingleR when batch effect present in profile
SingleR MouseGastrulationData
updated 4.8 years ago by ★ 28k • written 4.8 years ago by ▴ 70
2
votes
4
replies
1.6k
views
Impose minimum restrictions on correlations in SingleR
single cell R SingleR
updated 4.9 years ago by ★ 28k • written 4.9 years ago by ▴ 120
1
vote
2
replies
1.9k
views
Error with cell annotation using singleR
SingleR
updated 5.0 years ago by ★ 13k • written 5.0 years ago by ▴ 10
42 results • Page 1 of 1
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Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by yinhjk602 • 0
https://sprunkiphase4.net/ Sprunki Phase 4 is the latest update in the music rhythm game, offering new beats, characters, and challenges. Y…
Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Votes
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
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