Showing : singlecell • reset
0
votes
0
replies
271
views
News: Single-cell RNA-seq analysis with R/Bioconductor (online course)
SingleCellExperiment SingleCell
6 months ago info ▴ 10
0
votes
0
replies
404
views
Job: Postdoctoral Research Associate in Computational Epigenomics
Phd SingleCell DNAMethylation Shanghai JobPosting
7 months ago xiaolong • 0
0
votes
0
replies
499
views
Job: Postdoctoral fellowships in Spatial Omics and Single Cell Genomics at the University of Padova (IT)
SingleCell Transcriptomics SpatialDatasets SpatialData
10 months ago Silvio • 0
0
votes
0
replies
702
views
Job: Bioinformatics Spatial Omics and Proteomics Postdoc (Research Officer / Senior Research Officer) at WEHI (Melbourne, Australia)
Proteomics JobPosting SingleCell Spatial SpatialExperiment
13 months ago Peter Hickey ▴ 750
3
votes
1
reply
1.1k
views
'Seurat' package
singlecell seurat
updated 23 months ago by ★ 4.8k • written 23 months ago by ▴ 10
0
votes
1
reply
1.2k
views
Choosing the right lower limit for emptyDrops
SingleCell emptyDrops 10X
updated 23 months ago by ▴ 750 • written 23 months ago by • 0
0
votes
2
replies
971
views
Why my log2fcs are too high?
DESeq2 SingleCell log2FC
23 months ago paria.alipour • 0
0
votes
2
replies
1.3k
views
Scaling and normalization by deconvolution of SMART-Seq 2 data
scran Clustering SingleCell Normalization
2.0 years ago Assa Yeroslaviz ★ 1.5k
1
vote
4
replies
1.1k
views
Single-cell differential expression analysis with multiple samples
SingleCell
2.1 years ago iaradsouza1 • 0
0
votes
8
replies
1.7k
views
fail to annotate chromosome data to single cell object
error SingleCell annotate
updated 16 months ago by • 0 • written 2.1 years ago by • 0
0
votes
0
replies
1.1k
views
Job: Open position in the CBIO lab: single-cell proteomics
Proteomics SingleCell JobPosting MassSpectrometry
2.1 years ago Laurent Gatto 1.6k
0
votes
3
replies
1.9k
views
Knee and Inflection of DropletUtils
SingleCell
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by • 0
0
votes
1
reply
4.3k
views
DESeq2 after Seurat analysis on integrated datasets
DESeq2 SingleCell GeneExpression Seurat
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by • 0
1
vote
1
reply
1.2k
views
Pseudobulk running all groups together vs subsetting first
DESeq2 edgeR SingleCell
updated 2.2 years ago by ★ 13k • written 2.2 years ago by ▴ 70
0
votes
1
reply
943
views
Job: Reopened: 'Omics data analyst for HPCBio, University of Illinois
SingleCell Spatial RNA-seq
2.2 years ago Jenny Drnevich ★ 2.0k
0
votes
3
replies
1.2k
views
Tissue Level Differential Expression Analysis
DESeq2 DifferentialExpression differentialex Pseudobulk SingleCell
updated 2.3 years ago by 43k • written 2.3 years ago by • 0
0
votes
1
reply
914
views
Job: 'Omics data analyst for HPCBio, University of Illinois
SingleCell rnaseq methylationArrayAnalysis Spatial
written 2.3 years ago by ★ 2.0k
0
votes
3
replies
1.9k
views
Single-Cell Data Simulation from Bulk RNA-seq
SingleCell RNASeq RNASeqData scRNAseq
updated 8 months ago by • 0 • written 2.4 years ago by • 0
0
votes
1
reply
969
views
allele count data bioc object
SingleCell SingleCellMultiModal allele
updated 2.5 years ago by 43k • written 2.5 years ago by • 0
0
votes
0
replies
1.1k
views
Job: Postdoctoral Fellow in Epigenomcis/Neurobiology (MGH/Harvard Medical School, Boston)
GenomicVariation SingleCell Autism Neurogenesis Epigenetics
2.5 years ago sudhir.thakurela • 0
0
votes
0
replies
755
views
Gene Id duplicated
SingleCell SingleCellData
updated 2.5 years ago by ★ 4.8k • written 2.5 years ago by • 0
0
votes
1
reply
1.0k
views
Set up "mock" cell type as the reference?
DESeq2 SingleCell
updated 2.6 years ago by 43k • written 2.6 years ago by ▴ 10
0
votes
0
replies
719
views
weighting sample group
monocle SingleCell DifferentialExpression
2.6 years ago Sogand • 0
2
votes
2
replies
1.1k
views
How to detect LacZ tagged cells from single cell
SingleCell SingleCellExperiment SingleCellWorkflow SingleCellData
2.6 years ago k1m ▴ 20
0
votes
2
replies
1.5k
views
how to plot a fitting line on the testPseudotime
Pseudotime testPseudotime TSCAN SingleCell OSCA
2.6 years ago Guandong Shang ▴ 40
2
votes
4
replies
1.3k
views
Summary of library size factor is all equal to one
SingleCell SingleCellData SingleCellWorkflow SingleCellExperiment
2.6 years ago Romina • 0
0
votes
1
reply
1.6k
views
Error in .testForValidKeys(x, keys, keytype, fks) :
SingleCell AnnotationDbi
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
votes
1
reply
1.7k
views
Error in running: classifySingleR from SingleR package
SingleR SingleCell
updated 2.7 years ago by ★ 4.8k • written 2.7 years ago by • 0
1
vote
2
replies
1.9k
views
DESeq2 aggregated single cell data
pseudobulk SingleCell DESeq2
2.7 years ago fluentin44 • 0
0
votes
0
replies
928
views
Differential expression with single cell data: any good two component (hurdle) models recently?
SingleCellWorkflow DifferentialExpression SingleCell SingleCellMultiModal MAST
2.8 years ago Nik Tuzov ▴ 90
0
votes
0
replies
1.1k
views
Performing DGE analysis with MAST on a variable with more than 2 levels
MAST DEG SingleCell
2.9 years ago zroger499 • 0
2
votes
1
reply
1.0k
views
() followed by [] within an argument in singlecell OSCA workflow
SingleCell R OSCA
updated 3.0 years ago by ▴ 90 • written 3.0 years ago by • 0
2
votes
1
reply
2.3k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 3.2 years ago by 68k • written 3.2 years ago by • 0
0
votes
0
replies
1.1k
views
Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
3.2 years ago zroger499 • 0
0
votes
0
replies
1.2k
views
Job: Postdoc Opening in Bioinformatics or Computational Biology
SpatialData scRNAseq SingleCell Omixer
3.2 years ago Sebastian Lewandowski • 0
2
votes
2
replies
1.5k
views
velociraptor preparation
SingleCellExperiment singlecell velociraptor scvelo
updated 3.3 years ago by ★ 4.8k • written 3.3 years ago by ▴ 40
0
votes
0
replies
928
views
Job: Research Scientists/Postdoctoral Candidates/Computational Biologists and Programmers excited about computational challenges in modeling CRISPR genome…
CRISPR SingleCell Genomics
3.5 years ago lpinello • 0
1
vote
2
replies
1.4k
views
Using limma duplicateCorrelation to account for donor/dataset effects in scRNA-Seq pseudobulk counts from multiple sources
limma SingleCell
3.5 years ago Andrew Pattison • 0
0
votes
0
replies
965
views
Spike-In Cells for Normalization?
SpikeIn SingleCell
3.6 years ago mb1996 • 0
0
votes
0
replies
972
views
Job: Computational postdoctoral fellow for cancer disparities research (Boston University)
DNASeq RNASeq SingleCell
3.7 years ago camp ▴ 10
0
votes
0
replies
1.2k
views
Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
3.7 years ago lianov • 0
0
votes
1
reply
1.3k
views
Differentially expressed genes across three different conditions
MAST SingleCell diffGeneAnalysis
updated 3.8 years ago by 68k • written 3.8 years ago by • 0
3
votes
2
replies
3.1k
views
Merging only those samples sequenced over multiple batches - scRNA-seq
SingleCell SingleCellExperiment scater
4.2 years ago camerond • 0
0
votes
0
replies
1.3k
views
Job: Computational Biologist at Denali Therapeutics
Transcriptomics SingleCell JobPosting
4.3 years ago Steve Lianoglou ★ 13k
0
votes
2
replies
1.8k
views
Removal of cell cycle effect using batchelor::regressBatches() and proper usage of corrected UMI matrix
scRNAseq batchelor SingleCell SingleCellExperiment scran
4.3 years ago jirkanov • 0
3
votes
1
reply
2.3k
views
DESeq2 DE gene expression of scRNA-seq pseudobulk
DESeq2 SingleCell
updated 4.4 years ago by 43k • written 4.4 years ago by ▴ 10
0
votes
1
reply
1.1k
views
improving running time of runNMF
runNMF scater singlecell SingleCellExperiment
updated 4.4 years ago by ★ 28k • written 4.4 years ago by ▴ 50
0
votes
0
replies
1.1k
views
Creating a stable batch-corrected scRNA-Seq data with multiple datasets and multiple integrations
scater singlecell scran BatchEffect
4.4 years ago hamza_karakurt ▴ 60
2
votes
6
replies
2.9k
views
Discarding ambient RNA using estimateAmbience
emptyDrop ambient singlecell estimateAmbience
updated 4.5 years ago by ★ 28k • written 4.5 years ago by ▴ 50
0
votes
6
replies
3.4k
views
Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell singlecellexperiment umap singleR
updated 4.6 years ago by ★ 28k • written 4.6 years ago by ▴ 80
50 results • Page 1 of 1
Recent ...
Replies
Answer: Model performance for spline modelling of RNA-seq timecourses in edgeR by Gordon Smyth 52k
I don't understand your question, because there is no difference between limma or glmFit or glmQLFit in terms of spline modeling or the tes…
Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0
Perhaps edgeR's upperquartile normalization handles this better, the MA looks a lot more centered at 0 ![enter image description here][1]…
Answer: DESeq2 - am I extracting results incorrectly? by James W. MacDonald 68k
If I assume that Followup gets converted to T3 and Treatment to LowSug somewhere along the line (and therefore GroupTreatment.Followup is G…
Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0
I noticed the dual populations as well, when using csaw this is controlled for. Regarding the DE profile, given this disease condition we e…
Answer: Origin of the labels for the SingleCellMultiModal dataset by ATpoint ★ 4.8k
If you check the underlying code a bit you find that there is a file with data sources: ```r modes_file <- system.file("extdata", "metadat…
Votes
Answer: Improving performance of edgeR and limma while adjusting for multiple confounder
Comment: DESeq - help with pair wise comparisons
Answer: Is random access by row index possible for an indexed VCF file?
Answer: Is random access by row index possible for an indexed VCF file?
Answer: SingleR with multiple single cell references
Awards • All
Popular Question to Gordon Smyth 52k
Popular Question to pcantalupo ▴ 10
Popular Question to bioinformaticssrm2011 • 0
Popular Question to slizchap • 0
Scholar to Aaron Lun ★ 28k
Locations • All
United States, 1 minute ago
Canada, 2 minutes ago
The city by the bay, 22 minutes ago
San Diego, 57 minutes ago
WEHI, Melbourne, Australia, 1 hour ago
Traffic: 583 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