Showing : SingleCellData • reset
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News: Course: Single-cell analysis with R/Bioconductor
SingleCellExperiment SingleCell SingleCellWorkflow SingleCellData
4 months ago Ludwig Geistlinger ▴ 80
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Possible issue following the logNormCounts(filtered) with resulted fit
single-cell SingleCell SingleCellExperiment SingleCellWorkflow SingleCellData
7 months ago Konstantinos Yeles ▴ 90
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How to adjust for Cell Type Differences between groups in Pseudo-Bulk Differential Gene Expression analysis in scRNA-seq?
SingleCellData DESeq2 pseudobulk sing
updated 10 months ago by 68k • written 10 months ago by • 0
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Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
11 months ago Muhammad • 0
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Integration of Single Cell Experiments with batchelor::fastMNN
fastMNN SingleCellData BatchEffect batchelor
15 months ago • updated 14 months ago José • 0
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732
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Is CEMiTool for gene coexpression analysis suitable for single cell RNA Seq data?
SingleCellData CEMiTool
updated 17 months ago by 68k • written 17 months ago by • 0
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Dimensionality reduction visualization
imcRtools SingleCellData imcdatasets SpatialWorkflow
updated 24 months ago by 68k • written 24 months ago by • 0
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3.9k
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Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
written 2.1 years ago by • 0
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2
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Fail to annotate chromosome data to single cell sequencing data obtained from cellranger
AnnotationHubSoftware SingleCellData annotationTools
updated 2.2 years ago by ★ 5.0k • written 2.2 years ago by • 0
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insufficient unique points for computing knee/inflection points
DropletUtils SingleCellData
updated 2.5 years ago by ★ 5.0k • written 2.5 years ago by • 0
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Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
2.5 years ago Matvii Mykhailichenko • 0
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Job: Research Assistant - Computational Biology/Immunology, Memorial Sloan Kettering, New York
SingleCellData ComputationalBiology
2.8 years ago Chrysothemis ▴ 10
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Job: Job as a bioinformatician in Hamburg, Germany
DimensionReduction SingleCellData multiomics MachineLearning
3.1 years ago Diego's • 0
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990
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Gene Id duplicated
SingleCell SingleCellData
updated 3.3 years ago by ★ 5.0k • written 3.3 years ago by • 0
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How to detect LacZ tagged cells from single cell
SingleCell SingleCellExperiment SingleCellWorkflow SingleCellData
updated 5 months ago by • 0 • written 3.3 years ago by ▴ 20
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4
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1.7k
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Summary of library size factor is all equal to one
SingleCell SingleCellData SingleCellWorkflow SingleCellExperiment
3.3 years ago Romina • 0
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1
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1.5k
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Splatter (unknown correlation between gene expression level in different cell types)
SingleCellData splatter
updated 3.7 years ago by ▴ 50 • written 3.7 years ago by • 0
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1.3k
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Running PLAGE gets killed
GSVA SingleCellData
updated 3.8 years ago by ★ 3.4k • written 3.8 years ago by • 0
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1
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2.7k
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Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 4.0 years ago by 68k • written 4.0 years ago by • 0
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2.6k
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10X FeatureBarcode producing too many "cells"
SingleCellExperiment DropletUtils SingleCellData
updated 5.0 years ago by ★ 29k • written 5.0 years ago by ▴ 10
20 results • Page 1 of 1
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Comment: Joining different datasets and analyzing using the group-specific condition effe by jason.chai • 0
Thank you very much. I had read that and wondered if I used the recommendation in DESeq vignette, I would lose the pairing between groups? …
Comment: Questions about bacon QC and correction on EWAS results by sup0903 • 0
This is qq plot and histogram generated before bacon correction ![enter image description here][1] ![enter image description here][2] …
Comment: Ensembl site unresponsive via biomaRt by sebastianenewell • 0
> I think this is an unrelated issue. The original post includes the > message Error: 'curl_parse_url' is not an exported object from > 'na…
Comment: Development of MSstat workflow to analyze DIA time series data by Gordon Smyth 53k
Are there any other explanatory factors or covariates in your experiment other than time point? Do you have biological replicates at each t…
Answer: Question about the filterByExpr function inputs in edgeR by Gordon Smyth 53k
Either of these choices is perfectly acceptable from an edgeR analysis point of view, it is more to do with which is more relevant for your…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
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