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SingleR
•
reset
0
votes
2
replies
46k
views
SingleR Label.Ont
SingleR
written 16 months ago by
saeed.khalili
• 0
1
vote
1
reply
314
views
segfault when using singleR with Azimuth reference
SingleR
updated 3 months ago by
James W. MacDonald
67k • written 3 months ago by
Lluís Revilla Sancho
▴ 760
0
votes
1
reply
580
views
Validity of SingleR with very small bulk RNAseq reference
SingleR
updated 5 months ago by
ATpoint
★ 4.6k • written 5 months ago by
nhaus
▴ 70
0
votes
1
reply
557
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 7 months ago by
ATpoint
★ 4.6k • written 7 months ago by
1319244258
• 0
0
votes
3
replies
1.1k
views
dittobarplot Var error
RNASeq
ditto
dittoSeq
SingleR
written 12 months ago by
Fayrouz
• 0
1
vote
2
replies
1.3k
views
Reduce single cell experiment size to use as reference for annotation with SingleR
SingleR
SingleCellExperiment
13 months ago
elgomez
• 0
1
vote
4
replies
3.8k
views
JoinLayers function for Seurat Object for annotation with SingleR
SingleR
SeuratscRNA
written 13 months ago by
Bine
▴ 50
2
votes
4
replies
2.8k
views
SingleR annotation of several slots/patients
SingleR
written 13 months ago by
Bine
▴ 50
0
votes
1
reply
541
views
SingleR Book Not Found
SingleR
updated 13 months ago by
Peter Hickey
▴ 740 • written 13 months ago by
jgattiker
• 0
1
vote
2
replies
1.8k
views
trying to add SingleR label to Seurat Object fails
SingleR
Seurat
updated 14 months ago by
ATpoint
★ 4.6k • written 14 months ago by
Assa Yeroslaviz
★ 1.5k
0
votes
2
replies
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
4.4k
views
error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
seurat
singleR
updated 19 months ago by
Marco
• 0 • written 5.2 years ago by
mathai.c
• 0
0
votes
0
replies
839
views
what should be the input for SingleR() automatic cell type annotation?
SingleR
19 months ago
Yijing
• 0
1
vote
4
replies
1.8k
views
SingleR and gcc-8.3.0
gcc
SingleR
updated 22 months ago by
Jovana Maksimovic
▴ 20 • written 22 months ago by
Fabien
▴ 10
0
votes
1
reply
1.1k
views
scRNAseq package and cell type annotations
ExperimentHub
R
ExperimentHubData
scRNAseq
SingleR
updated 22 months ago by
Peter Hickey
▴ 740 • written 22 months ago by
cathalgking
▴ 10
0
votes
0
replies
687
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 20 months ago by
Irish
• 0 • written 2.2 years ago by
carlo
• 0
1
vote
1
reply
981
views
SingleR using TPM in a bulk RNA seq dataset
SingleR
updated 2.2 years ago by
ATpoint
★ 4.6k • written 2.2 years ago by
mea2712
• 0
0
votes
1
reply
1.7k
views
Error in running: classifySingleR from SingleR package
SingleR
SingleCell
updated 2.5 years ago by
ATpoint
★ 4.6k • written 2.5 years ago by
amit.korngut
• 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
2.8 years ago • updated 2.7 years ago
rohitsatyam102
▴ 20
0
votes
1
reply
1.4k
views
celldex error when downloading reference datasets
celldex
SingleR
updated 2.9 years ago by
Aaron Lun
★ 28k • written 2.9 years ago by
indigofreesia
• 0
15
votes
13
replies
3.8k
views
celldex ensembl gene annotation issue
SingleR
celldex
HumanPrimaryCellAtlasData
ensembl
updated 3.2 years ago by
xiang
▴ 10 • written 3.2 years ago by
immuno.dh
▴ 20
0
votes
1
reply
3.3k
views
Convert SummarizedExperiment to SingleCellExperiment Object
SingleCellExperiment
SummarizedExperiment
SingleR
updated 3.4 years ago by
ATpoint
★ 4.6k • written 3.4 years ago by
Gen
• 0
0
votes
2
replies
4.5k
views
Single R-- Error in is.null(rownames(x)) && nrow(x) : invalid 'y' type in 'x && y'
SingleR
updated 2.8 years ago by
13304885395
• 0 • written 3.5 years ago by
ntourtillott23
• 0
2
votes
3
replies
4.8k
views
Error in SingleR, no common genes between 'test' and 'ref'
SingleR
3.6 years ago • updated 3.5 years ago
Imtiaz
▴ 10
2
votes
2
replies
3.3k
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 14 months ago by
Assa Yeroslaviz
★ 1.5k • written 3.7 years ago by
FantasticAI
▴ 10
1
vote
1
reply
1.9k
views
SingleR::mouseRNAseqData Error in UseMethod(filter_)
SingleR
ImmgenData()
mouseRNAseqData()
updated 3.9 years ago by
Mike Smith
★ 6.6k • written 3.9 years ago by
Collins
• 0
0
votes
1
reply
2.7k
views
SingleR and SCTransform
SingleR
updated 3.9 years ago by
Aaron Lun
★ 28k • written 3.9 years ago by
amel.zulji
▴ 20
2
votes
3
replies
2.0k
views
SingleCellExperiment and SingleR for identifying T cell subsets
cellsubset
SingleR
SingleCellExperiment
4.1 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
bongowongo
• 0 • written 4.3 years ago by
inzirio
▴ 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 4.3 years ago by
Aaron Lun
★ 28k • written 4.3 years ago by
w.gus.dunn
• 0
0
votes
6
replies
3.2k
views
Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell
singlecellexperiment
umap
singleR
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
lirongrossmann
▴ 80
1
vote
3
replies
1.7k
views
Raw counts for reference dataset in single cell rnaseq
single cell
celldex
singleR
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
lirongrossmann
▴ 80
0
votes
2
replies
1.8k
views
most correlated genes in SingleR
singlecell
singleR
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
lirongrossmann
▴ 50
0
votes
1
reply
1.9k
views
predicting cell type of clusters using singleR
singleR
singlecell
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
lirongrossmann
▴ 50
0
votes
3
replies
2.5k
views
marker genes in singleR
singleR
singlecell
singlecellexperiment
updated 4.5 years ago by
Aaron Lun
★ 28k • written 4.5 years ago by
lirongrossmann
▴ 50
8
votes
16
replies
8.1k
views
Cannot connect to ExperimentHub server
ExperimentHub
AnnotationHub
SingleR
updated 4.5 years ago by
shepherl
4.1k • written 4.5 years ago by
enricoferrero
▴ 660
0
votes
1
reply
1.5k
views
pheatmap needs to be manually added to plot heatmaps
singler
bug
4.8 years ago
muad.abdelhay
▴ 10
0
votes
1
reply
1.4k
views
Assay choice for cell type annotation using SingleR when batch effect present in profile
SingleR
MouseGastrulationData
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
jma1991
▴ 70
2
votes
4
replies
1.6k
views
Impose minimum restrictions on correlations in SingleR
single cell
R
SingleR
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
k.vitting.seerup
▴ 120
1
vote
2
replies
1.9k
views
Error with cell annotation using singleR
SingleR
updated 5.0 years ago by
Steve Lianoglou
★ 13k • written 5.0 years ago by
bony.dekumar
▴ 10
42 results • Page
1 of 1
Recent ...
Replies
Comment: EdgeR Biological CVs
by
Joseph
• 0
I believe the published study provides answers to your questions. Yunshun Chen and Pedro Baldoni's recent papers on edgeR may also be of in…
Answer: EdgeR Biological CVs
by
Gordon Smyth
52k
I think your questions are answered by the published paper. You might also like to consult recent papers on edgeR by Yunshun Chen and Pedro…
Answer: Curiously shaped volcano plot with using oarfish + swish to do differential gene
by
Michael Love
43k
See swish vignette, these are explained.
Comment: Problems with oarfish + tximport + swish
by
Michael Love
43k
Great thanks for posting the issue and sticking with it Annaleigh
Comment: Problems with oarfish + tximport + swish
by
brown.annaleigh
• 0
Awesome possum! Update works!! Thank you so much for the help and guidance!
Votes
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Answer: Limma Interaction Effect with Covariates
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52k
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4.1k
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James W. MacDonald
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