Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
Seurat
•
reset
0
votes
3
replies
415
views
How to compare expression levels of genes between scRNAseq and bulkRNAseq?
Seurat
RNASeq
DESeq2
scRNAseq
updated 6 weeks ago by
jodan
• 0 • written 8 weeks ago by
Quang NN
▴ 10
0
votes
2
replies
871
views
How to add Ensembl ids after Pseudobulk analysis by DESeq2
Seurat
DESeq2
single-cell
scRNA
Pseudobulk
updated 9 months ago by
Guido Hooiveld
★ 4.1k • written 10 months ago by
Sara
• 0
0
votes
5
replies
1.8k
views
scRNA-seq as pseudobulk for DEseq2: does AggregateExpression() normalize counts?
pseudobulk
seurat
DESeq2
updated 15 months ago by
Kevin Blighe
★ 4.0k • written 15 months ago by
daiane.hemerichbrennan
• 0
1
vote
2
replies
2.3k
views
trying to add SingleR label to Seurat Object fails
SingleR
Seurat
updated 16 months ago by
ATpoint
★ 4.7k • written 16 months ago by
Assa Yeroslaviz
★ 1.5k
0
votes
4
replies
4.6k
views
error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
seurat
singleR
updated 21 months ago by
Marco
• 0 • written 5.3 years ago by
mathai.c
• 0
3
votes
1
reply
1.1k
views
'Seurat' package
singlecell
seurat
updated 22 months ago by
ATpoint
★ 4.7k • written 22 months ago by
Sooni
▴ 10
0
votes
2
replies
1.3k
views
ModuleExprScore function/ hdWGNCA
ModuleExprScore
DotPlot
hdWGNCA
Seurat
23 months ago
Yuko
• 0
0
votes
1
reply
4.2k
views
DESeq2 after Seurat analysis on integrated datasets
DESeq2
SingleCell
GeneExpression
Seurat
updated 2.1 years ago by
ATpoint
★ 4.7k • written 2.1 years ago by
bio.boi
• 0
1
vote
2
replies
1.3k
views
Error with FindConservedMarkers()
seurat
2.1 years ago
Chris
▴ 20
1
vote
0
replies
2.3k
views
Convert SpatialExperiment Object to Seurat Object
scuttle
scater
seurat
SpatialExperiment
2.1 years ago
cathalgking
▴ 10
2
votes
1
reply
2.2k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase
SingleCellData
seurat
SingleCell
updated 3.2 years ago by
James W. MacDonald
68k • written 3.2 years ago by
NGS_enthusiast
• 0
0
votes
3
replies
1.9k
views
NA values for mitochondrial gene percentage
Seurat
scRNAseq
3.3 years ago
zahra.mesri95
• 0
1
vote
1
reply
1.6k
views
Seurat: normalized data in the integrated assay
seurat
updated 3.8 years ago by
Peter Hickey
▴ 750 • written 3.8 years ago by
zli1
• 0
5
votes
15
replies
16k
views
Can't able to install Seurat in Rstudio
Rstudio
Seurat
updated 3.8 years ago by
Kevin Blighe
★ 4.0k • written 3.8 years ago by
KOUSTAV
• 0
0
votes
0
replies
854
views
Using csClassify on a SeuratObject
scRNAseq
csClassify
Seurat
updated 3.8 years ago by
ATpoint
★ 4.7k • written 3.8 years ago by
curiousmind007
▴ 10
2
votes
2
replies
2.7k
views
Error when converting Seurat to SingleCellExperiment
Seurat
SingleCellExperiment
4.3 years ago
lirongrossmann
▴ 50
6
votes
3
replies
3.8k
views
Full length single-cell RNA-seq - tximport output for downstream analysis
tximport
Seurat
Smart-Seq
Smart-Seq2
updated 4.7 years ago by
Michael Love
43k • written 4.7 years ago by
lshepard
▴ 40
3
votes
6
replies
3.7k
views
Carry over variable features when converting FastMNN SCE object to Seurat object
mnn
batchelor
scrna-seq
seurat
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
heir_of_isildur88
• 0
5
votes
1
reply
2.1k
views
Best practice for correlating scRNA seq to bulkRNA seq data
seurat
edgeR
spearman
correlation
scRNAseq
updated 4.9 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
tobias-messmer
▴ 20
0
votes
2
replies
2.0k
views
PCA outliers cleaning
scRNAseq
Pipeline
Seurat
SingleCellExperiment
5.4 years ago
albadrs.93
▴ 10
0
votes
3
replies
2.2k
views
Error: no applicable method for `RunTSNE` applied to an object of class "try-error"
Seurat
scRNA
debugging
exceptions
unit-test
updated 5.4 years ago by
Martin Morgan
25k • written 5.4 years ago by
moldach
▴ 20
2
votes
2
replies
3.2k
views
DE analysis for 10X scRNA-seq data with multiple conditions and multiple replicates
scRNA-seq
Seurat
DE
updated 5.5 years ago by
Aaron Lun
★ 28k • written 5.5 years ago by
ilee8
• 0
2
votes
4
replies
4.2k
views
How to convert large gene counts data into matrix?
R
Bioconductor
singlecell
bioinformatics
seurat
updated 13 months ago by
Gordon Smyth
52k • written 5.7 years ago by
sambunga094
• 0
1
vote
3
replies
13k
views
Seurat 2.3.4 installation
seurat
updated 5.9 years ago by
Gordon Smyth
52k • written 5.9 years ago by
Mike
▴ 10
1
vote
1
reply
1.6k
views
gene counts in Seurat after RunCCA() and AlignSubspace()
scRNA-seq
seurat
CCA
updated 6.2 years ago by
Aaron Lun
★ 28k • written 6.2 years ago by
Bogdan
▴ 670
0
votes
1
reply
3.1k
views
Deconvolution Method in Seurat and convert from SingleCellExperiment
scater
seurat
singlecellexperiment
rnaseq
updated 6.3 years ago by
Gordon Smyth
52k • written 6.3 years ago by
hamza_karakurt
▴ 60
0
votes
4
replies
3.3k
views
scRNA-seq: a question about the names of the columns in a Seurat object
scRNA-seq
SEURAT
updated 6.3 years ago by
Steve Lianoglou
★ 13k • written 6.3 years ago by
Bogdan
▴ 670
1
vote
5
replies
3.0k
views
newSCESet and SingleCellExperiment basic differences and TMM Normalization
singlecellexperiment
single-cell
rnaseq
seurat
scater
6.5 years ago
hamza_karakurt
▴ 60
2
votes
2
replies
14k
views
Seurat/DESeq2 - single cell RNA-seq differential expression
seurat
deseq2
updated 6.6 years ago by
Michael Love
43k • written 6.6 years ago by
Clara
▴ 10
0
votes
1
reply
5.5k
views
Conversion to SingleCellExperiment from Seurat objects
Seurat
SingleCellExperiment
6.8 years ago
Wolfgang Huber
★ 13k
6
votes
2
replies
6.2k
views
Cell type specific cell markers for Seurat based analysis.
single cell
seurat
clustering
updated 7.7 years ago by
ankur.chakravarthy.10
▴ 40 • written 7.7 years ago by
hrishi27n
▴ 20
31 results • Page
1 of 1
Recent ...
Replies
Comment: DiffBind custom normalization factor
by
Abbie
• 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2?
by
James W. MacDonald
68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
Comment: Using TPM from tximport of Salmon output for singscore
by
Kent
• 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore
by
Michael Love
43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
Comment: DESeq2 model - How to test case/control time course model when taking account wi
by
Michael Love
43k
I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
clusterProfiler-GO enrichment Error
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
Awards
• All
Popular Question
to
Dario Strbenac
★ 1.6k
Popular Question
to
L
▴ 50
Popular Question
to
Gordon Smyth
52k
Popular Question
to
boczniak767
▴ 740
Popular Question
to
Luca
• 0
Locations
• All
The city by the bay,
21 minutes ago
UPF, Barcelona, Spain,
9 hours ago
Sweden,
12 hours ago
Seattle, WA, United States,
15 hours ago
Australia,
23 hours ago
Traffic: 396 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6