Showing : single-cell • reset
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Job: PhD student position: Vertebrate brain origins and evolution
PhD single-cell ComparativeGenomics evolution
3 months ago henrik.kaessmann • 0
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0
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121
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Job: Bioinformatics postdoc in comparative genomics
single-cell evolution Genomics Postdoc
3 months ago henrik.kaessmann • 0
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0
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169
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Job: Job: Moderna Statistical genomics co-op 2022, single-cell applications in immunology, masters or PhDs
co-op immunology single-cell omics
4 months ago joyce.hsiao1 • 0
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0
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216
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Job: Computational Biologist, Blood Research Institute, Versiti, Wauwatosa, Wisconsin, USA
RNA-seq Job Single-Cell
8 months ago rbrns • 0
4
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3
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383
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Effect of feature number on adjusted p-values
edgeR DESeq2 single-cell scRNAseq zinbwave
updated 8 months ago by ★ 27k • written 8 months ago by ▴ 20
1
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2
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282
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question for "Chapter 24 Zeisel mouse brain (STRT-Seq) in single-cell"
STRT-Seq single-cell tutorial
updated 19 months ago by ★ 27k • written 19 months ago by • 0
0
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3
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894
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Issue with scp transfer of DESeq2 objects
deseq2 scp Unix Single-Cell
updated 2.1 years ago by 25k • written 2.1 years ago by ▴ 20
5
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6
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1.3k
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How to build and map to a "pre-mRNA" reference transcriptome for single nucleus RNA-seq data?
tximeta ensembldb single-cell snRNA-seq tximport
updated 2.3 years ago by ★ 2.8k • written 2.3 years ago by ▴ 80
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1
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543
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Scran: Performing DE after cell-typle identifaction on the corrected and integrated datasets
Scran MNN_correct Differential expression single-cell
2.9 years ago baldissera152 • 0
7
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12
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2.7k
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How to identify real cells in 10X RNA-seq ?
single-cell 10X Cell calling DropletUtils cellranger
updated 2.9 years ago by ★ 27k • written 2.9 years ago by ▴ 20
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0
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370
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Job: Biostatistics Analyst II - high throughput single-cell assays
biostatistics single-cell high throughput Job
3.0 years ago careers • 0
3
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0
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593
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Job: Postdoctoral Scientist position at intersection of Single-Cell Cancer Genomics, Data Science and Bioconductor Software Development
job single-cell data science cancer genomics Job
3.1 years ago Stephanie Hicks ▴ 80
2
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2
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953
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[MnnCorrect] Remove batch effects but keep condition effects
single-cell scran mnncorrect rnaseq
updated 3.2 years ago by ★ 27k • written 3.2 years ago by ▴ 10
1
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448
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Job: applied methods development for single-cell sequencing
single-cell job computational biology Job
3.2 years ago Simon Anders ★ 3.7k
3
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2
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918
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Seurat to SingleCellExperiment Converting error in MAC
singlecellexperiment single-cell rnaseq
updated 3.2 years ago by 13k • written 3.2 years ago by ▴ 50
0
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0
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528
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Job: PhD opportunity in Heidelberg for computational people
PhD position job single-cell Job
3.3 years ago Simon Anders ★ 3.7k
1
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5
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1.5k
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newSCESet and SingleCellExperiment basic differences and TMM Normalization
singlecellexperiment single-cell rnaseq seurat scater
3.3 years ago hamza_karakurt ▴ 50
1
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1
reply
560
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Problem with finding mitochondrial genes in a human single cell RNA-Seq readCounts file
single-cell rnaseq mitochondria
updated 3.4 years ago by ★ 27k • written 3.4 years ago by • 0
0
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3
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496
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Error of makeTechTrend() of Scran
scran single-cell seq.default
updated 3.5 years ago by ★ 27k • written 3.5 years ago by • 0
1
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1
reply
689
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Adjust number of clusters with scran/buildSNNGraph
scran buildsnngraph cluster_walktrap single-cell
updated 3.5 years ago by ★ 27k • written 3.5 years ago by • 0
3
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3
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4.8k
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rowSums() rowMeans() don't work on sparse matrix "dgCMatrix"
scater scran single-cell
updated 3.6 years ago by 25k • written 3.7 years ago by ▴ 10
2
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1
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1.1k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 3.8 years ago by ▴ 260 • written 3.8 years ago by ▴ 20
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4
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2.9k
views
Change point size and remove outline in scater's plotPCA
scater rnaseq single-cell
updated 3.8 years ago by • 0 • written 4.7 years ago by ▴ 60
0
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28
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1.5k
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Job: Postdoc on integrating and analyzing new transcriptome types in the Bgee database
rnaseq data integration single-cell pacbio across species Job
3.9 years ago bgee • 0
1
vote
3
replies
696
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Differential expressiong with two groups in BASiCS
BASiCS single-cell bayesian differential expression
updated 4.0 years ago by ▴ 10 • written 4.0 years ago by ▴ 10
4
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3
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871
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single-cells RNA-seq analysis by MAST with unbalanced group size
mast single-cell rna-seq differential analysis
updated 4.1 years ago by ▴ 260 • written 4.1 years ago by ▴ 90
4
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5
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918
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SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 4.3 years ago by 25k • written 4.3 years ago by ▴ 20
3
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3
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1.4k
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How do you test a contrast in MAST?
MAST single-cell differential gene expression
updated 4.4 years ago by ▴ 260 • written 4.4 years ago by ▴ 40
5
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6
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1.7k
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Error when merging SCESet objects
scater single-cell
updated 4.4 years ago by ★ 27k • written 4.4 years ago by ▴ 20
1
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1
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971
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Does SC3 correct counts for gene length?
sc3 scater single-cell rna-seq biclustering
updated 4.4 years ago by ▴ 150 • written 4.5 years ago by ▴ 20
2
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3
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813
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Scran functions not found
single-cell scran
updated 4.4 years ago by ★ 27k • written 4.4 years ago by • 0
2
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9
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1.6k
views
Zero inflation in RUV normalization and DE for single cell data
ruv ruvseq ruvnormalize single-cell zero-inflated
updated 4.5 years ago by ▴ 870 • written 4.5 years ago by ▴ 70
1
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0
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2.0k
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Tutorial: BoF Bioc2017: Infrastructure for efficient storage and processing of large-scale single-cell genomics data
single-cell objectstorage Tutorial
4.5 years ago shepherl 2.9k
0
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5
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1.6k
views
[MnnCorrect] In case of known subpopulations
scran single-cell mnncorrect rnaseq
4.5 years ago Jens Preussner ▴ 30
4
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2
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819
views
sc3_plot_expression, colour labels
sc3 single-cell
updated 4.6 years ago by ▴ 150 • written 4.6 years ago by ▴ 20
3
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3
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773
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Sharing SC3_interactive results
SC3 single-cell shiny
updated 4.7 years ago by ▴ 150 • written 4.7 years ago by ▴ 20
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0
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635
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Rstudio crashes when running monocole
monocole single-cell rstudio
4.7 years ago Assa Yeroslaviz ★ 1.5k
2
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5
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1.2k
views
sc3_prepare function error
sc3 scater single-cell single cell
updated 5.0 years ago by ▴ 150 • written 5.0 years ago by ★ 1.5k
3
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6
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2.3k
views
How to properly normalize a single-cell sparse matrix?
Dropseq single-cell normalization sparse
updated 5.4 years ago by ★ 27k • written 5.4 years ago by ▴ 20
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1.3k
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News: Workshop on Statistical Challenges in Single-Cell Biology, April 30 to May 5, 2017, at Villa Monte Verita, Ascona
workshop statistics single-cell News
5.4 years ago Wolfgang Huber 13k
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1.5k
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Job: Two Postdoc Positions in Evolutionary Single-Cell Genomics (experimental and computational)
evolution single-cell development differentiation cool Job
5.6 years ago Wolfgang Huber 13k
41 results • Page 1 of 1
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Comment: Multi-factor paired RNAseq differential analysis with DEseq2 by swbarnes2 ▴ 970
You can have as many columns as you like in coldata, only those specified in the design will be used when you do the DESeq command So sur…
Comment: Multi-factor paired RNAseq differential analysis with DEseq2 by Matthew • 0
Thanks for the suggestion, I'll give that a try! Based on the PCA, all three factors do tend to influence the results, so I'll try the colu…
Comment: fgsea not downloading due to new r version. Is there a way around this? by amir.khan • 0
Seems to have done the trick and worked. thanks!
Comment: Multi-factor paired RNAseq differential analysis with DEseq2 by Michael Love 35k
Just to underscore swbarnes2 advice above, I'd also recommend discussing statistical design with a local statistician or someone familiar w…
Answer: Multi-factor paired RNAseq differential analysis with DEseq2 by swbarnes2 ▴ 970
First, I'd start by looking at all your samples in PCA. Does sex have a strong effect? Does it make sense to compare one tissue with anot…
Votes
Answer: fgsea not downloading due to new r version. Is there a way around this?
Comment: Unable to install Rhtslib in R-4.1.1
Answer: fgsea not downloading due to new r version. Is there a way around this?
Answer: Swish with more than two conditions. Add support for contrasts?
Answer: ERROR: unable to find an inherited method for function ‘dispersions<-’ for signa
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