Showing : SingleCellData • reset
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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 8 weeks ago by 68k • written 8 weeks ago by • 0
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142
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Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
9 weeks ago Muhammad • 0
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2
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826
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Integration of Single Cell Experiments with batchelor::fastMNN
fastMNN SingleCellData BatchEffect batchelor
6 months ago José • 0
0
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1
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545
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Is CEMiTool for gene coexpression analysis suitable for single cell RNA Seq data?
SingleCellData CEMiTool
updated 8 months ago by 68k • written 8 months ago by • 0
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1
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560
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Dimensionality reduction visualization
imcRtools SingleCellData imcdatasets SpatialWorkflow
updated 15 months ago by 68k • written 15 months ago by • 0
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3.2k
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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
updated 5 days ago by • 0 • written 16 months ago by • 0
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Fail to annotate chromosome data to single cell sequencing data obtained from cellranger
AnnotationHubSoftware SingleCellData annotationTools
updated 17 months ago by ★ 4.8k • written 17 months ago by • 0
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3
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1.2k
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insufficient unique points for computing knee/inflection points
DropletUtils SingleCellData
updated 21 months ago by ★ 4.8k • written 21 months ago by • 0
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2
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1.8k
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Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
22 months ago Matvii Mykhailichenko • 0
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Job: Research Assistant - Computational Biology/Immunology, Memorial Sloan Kettering, New York
SingleCellData ComputationalBiology
2.0 years ago Chrysothemis ▴ 10
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1.0k
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Job: Job as a bioinformatician in Hamburg, Germany
DimensionReduction SingleCellData multiomics MachineLearning
2.4 years ago Diego's • 0
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761
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Gene Id duplicated
SingleCell SingleCellData
updated 2.6 years ago by ★ 4.8k • written 2.6 years ago by • 0
2
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2
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1.1k
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How to detect LacZ tagged cells from single cell
SingleCell SingleCellExperiment SingleCellWorkflow SingleCellData
2.6 years ago k1m ▴ 20
2
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4
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1.3k
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Summary of library size factor is all equal to one
SingleCell SingleCellData SingleCellWorkflow SingleCellExperiment
2.6 years ago Romina • 0
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1.3k
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Splatter (unknown correlation between gene expression level in different cell types)
SingleCellData splatter
updated 3.0 years ago by ▴ 50 • written 3.0 years ago by • 0
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1
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1.1k
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Running PLAGE gets killed
GSVA SingleCellData
updated 3.1 years ago by ★ 3.4k • written 3.1 years ago by • 0
2
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1
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2.3k
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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
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3
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2.3k
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10X FeatureBarcode producing too many "cells"
SingleCellExperiment DropletUtils SingleCellData
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 10
18 results • Page 1 of 1
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Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0
That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…
Comment: RNA Seq using Lrt by Rob • 0
So if I have understood what you have said : If i want to see if Day (time) has an effect / is being tested - then the reduced model should…
Comment: How to convert transcript counts to gene counts in R? by ben • 0
Simply summing transcripts by gene is sufficient for use with DESeq2. [sprunki clicker][1] [1]: https://sprunkiclicker.com/
Answer: EuroBioC2024 abstract submission is open! by Ali • 0
[Promo products][1] are a smart way to boost visibility, especially with exciting updates like *News: EuroBioC2024 abstract submission is o…
Answer: ROAST for small sets by Gordon Smyth 52k
The p-values from `mroast` will be the same (up to sampling variability associated with random rotations) regardless of whether you test al…
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Answer: ROAST for small sets
Answer: ROAST for small sets
A: conceptual question about FDR, FDR adjusted p-value and q-value
Comment: edgeR::cpm() results in negative values from raw counts of 0
Comment: edgeR::cpm() results in negative values from raw counts of 0
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