Showing : single-cell • reset
3
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2
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549
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BiocParallel errors from muscat
BiocParallel muscat single-cell
10 months ago tangming2005 ▴ 190
0
votes
0
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340
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Job: PhD student position: Vertebrate brain origins and evolution
PhD single-cell ComparativeGenomics evolution
16 months ago henrik.kaessmann • 0
0
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0
replies
369
views
Job: Bioinformatics postdoc in comparative genomics
single-cell evolution Genomics Postdoc
16 months ago henrik.kaessmann • 0
0
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0
replies
422
views
Job: Job: Moderna Statistical genomics co-op 2022, single-cell applications in immunology, masters or PhDs
co-op immunology single-cell omics
16 months ago joyce.hsiao1 • 0
0
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0
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446
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Job: Computational Biologist, Blood Research Institute, Versiti, Wauwatosa, Wisconsin, USA
RNA-seq Job Single-Cell
21 months ago rbrns • 0
7
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3
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721
views
Effect of feature number on adjusted p-values
edgeR DESeq2 single-cell scRNAseq zinbwave
updated 21 months ago by ★ 28k • written 21 months ago by ▴ 20
1
vote
2
replies
473
views
question for "Chapter 24 Zeisel mouse brain (STRT-Seq) in single-cell"
STRT-Seq single-cell tutorial
updated 2.6 years ago by ★ 28k • written 2.6 years ago by • 0
3
votes
3
replies
1.2k
views
Issue with scp transfer of DESeq2 objects
deseq2 scp Unix Single-Cell
updated 3.1 years ago by 25k • written 3.1 years ago by ▴ 20
5
votes
6
replies
2.0k
views
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 3.3 years ago by ★ 3.0k • written 3.3 years ago by ▴ 80
0
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1
reply
715
views
Scran: Performing DE after cell-typle identifaction on the corrected and integrated datasets
Scran MNN_correct Differential expression single-cell
3.9 years ago baldissera152 • 0
7
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12
replies
4.8k
views
How to identify real cells in 10X RNA-seq ?
single-cell 10X Cell calling DropletUtils cellranger
updated 3.9 years ago by ★ 28k • written 3.9 years ago by ▴ 20
0
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0
replies
538
views
Job: Biostatistics Analyst II - high throughput single-cell assays
biostatistics single-cell high throughput Job
4.0 years ago careers • 0
3
votes
0
replies
747
views
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
4.1 years ago Stephanie Hicks ▴ 80
2
votes
2
replies
1.2k
views
[MnnCorrect] Remove batch effects but keep condition effects
single-cell scran mnncorrect rnaseq
updated 4.2 years ago by ★ 28k • written 4.2 years ago by ▴ 10
1
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0
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587
views
Job: applied methods development for single-cell sequencing
single-cell job computational biology Job
4.2 years ago Simon Anders ★ 3.7k
3
votes
2
replies
1.2k
views
Seurat to SingleCellExperiment Converting error in MAC
singlecellexperiment single-cell rnaseq
updated 4.3 years ago by 13k • written 4.3 years ago by ▴ 50
0
votes
0
replies
672
views
Job: PhD opportunity in Heidelberg for computational people
PhD position job single-cell Job
4.3 years ago Simon Anders ★ 3.7k
1
vote
5
replies
1.8k
views
newSCESet and SingleCellExperiment basic differences and TMM Normalization
singlecellexperiment single-cell rnaseq seurat scater
4.3 years ago hamza_karakurt ▴ 50
1
vote
1
reply
851
views
Problem with finding mitochondrial genes in a human single cell RNA-Seq readCounts file
single-cell rnaseq mitochondria
updated 4.4 years ago by ★ 28k • written 4.5 years ago by • 0
0
votes
3
replies
613
views
Error of makeTechTrend() of Scran
scran single-cell seq.default
updated 4.5 years ago by ★ 28k • written 4.5 years ago by • 0
1
vote
1
reply
986
views
Adjust number of clusters with scran/buildSNNGraph
scran buildsnngraph cluster_walktrap single-cell
updated 4.5 years ago by ★ 28k • written 4.5 years ago by • 0
3
votes
3
replies
5.8k
views
rowSums() rowMeans() don't work on sparse matrix "dgCMatrix"
scater scran single-cell
updated 4.6 years ago by 25k • written 4.8 years ago by ▴ 10
2
votes
1
reply
1.6k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 4.8 years ago by ▴ 260 • written 4.8 years ago by ▴ 20
0
votes
4
replies
3.8k
views
Change point size and remove outline in scater's plotPCA
scater rnaseq single-cell
updated 4.8 years ago by • 0 • written 5.8 years ago by ▴ 70
0
votes
28
replies
1.9k
views
Job: Postdoc on integrating and analyzing new transcriptome types in the Bgee database
rnaseq data integration single-cell pacbio across species Job
4.9 years ago bgee • 0
1
vote
3
replies
873
views
Differential expressiong with two groups in BASiCS
BASiCS single-cell bayesian differential expression
updated 5.0 years ago by ▴ 10 • written 5.0 years ago by ▴ 10
4
votes
3
replies
1.1k
views
single-cells RNA-seq analysis by MAST with unbalanced group size
mast single-cell rna-seq differential analysis
updated 5.1 years ago by ▴ 260 • written 5.1 years ago by ▴ 100
4
votes
5
replies
1.2k
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 5.3 years ago by 25k • written 5.3 years ago by ▴ 20
3
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3
replies
1.7k
views
How do you test a contrast in MAST?
MAST single-cell differential gene expression
updated 5.4 years ago by ▴ 260 • written 5.4 years ago by ▴ 40
5
votes
6
replies
2.0k
views
Error when merging SCESet objects
scater single-cell
updated 5.4 years ago by ★ 28k • written 5.4 years ago by ▴ 20
1
vote
1
reply
1.1k
views
Does SC3 correct counts for gene length?
sc3 scater single-cell rna-seq biclustering
updated 5.4 years ago by ▴ 150 • written 5.5 years ago by ▴ 20
2
votes
3
replies
966
views
Scran functions not found
single-cell scran
updated 5.4 years ago by ★ 28k • written 5.4 years ago by • 0
2
votes
9
replies
1.9k
views
Zero inflation in RUV normalization and DE for single cell data
ruv ruvseq ruvnormalize single-cell zero-inflated
updated 5.5 years ago by ▴ 920 • written 5.5 years ago by ▴ 80
1
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0
replies
2.4k
views
Tutorial: BoF Bioc2017: Infrastructure for efficient storage and processing of large-scale single-cell genomics data
single-cell objectstorage Tutorial
5.5 years ago shepherl 3.4k
0
votes
5
replies
1.8k
views
[MnnCorrect] In case of known subpopulations
scran single-cell mnncorrect rnaseq
5.5 years ago Jens Preussner ▴ 30
4
votes
2
replies
998
views
sc3_plot_expression, colour labels
sc3 single-cell
updated 5.7 years ago by ▴ 150 • written 5.7 years ago by ▴ 20
3
votes
3
replies
945
views
Sharing SC3_interactive results
SC3 single-cell shiny
updated 5.7 years ago by ▴ 150 • written 5.7 years ago by ▴ 20
0
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0
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766
views
Rstudio crashes when running monocole
monocole single-cell rstudio
5.8 years ago Assa Yeroslaviz ★ 1.5k
2
votes
5
replies
1.4k
views
sc3_prepare function error
sc3 scater single-cell single cell
updated 6.0 years ago by ▴ 150 • written 6.0 years ago by ★ 1.5k
3
votes
6
replies
2.8k
views
How to properly normalize a single-cell sparse matrix?
Dropseq single-cell normalization sparse
updated 6.4 years ago by ★ 28k • written 6.4 years ago by ▴ 20
0
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0
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1.5k
views
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
6.5 years ago Wolfgang Huber 13k
0
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0
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1.6k
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Job: Two Postdoc Positions in Evolutionary Single-Cell Genomics (experimental and computational)
evolution single-cell development differentiation cool Job
6.6 years ago Wolfgang Huber 13k
42 results • Page 1 of 1
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Replies
Comment: DESeq2 and heatmap for multiple comparisons by artem.vorobyev • 0
this I already did. My question is how to visualize differentially expressed genes on the heatmap for all 3 groups (healty->lesion->treat…
Comment: athPkgBuilder data source :missing probesets by nicklesteele532 • 0
> >>> > >>> How to handle the one probeset to multiple locus mappings? I can > >think 3 > >>> possible solutions: > >>> 1. pick the "best" …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
> sum(width(gr_toexclude)) [1] 2713499861 I excluded everything which was not locus. If small rna locus is from 2000 to 4000 and next locu…
Comment: Why in Bioconductor community people rarely upvote questions? by Hervé Pagès 16k
BTW I fail to see how the lack of upvotes to a question would be discouraging as long as you get a good answer. OTOH I can see how failing …
Answer: DESeq2 and heatmap for multiple comparisons by swbarnes2 ★ 1.2k
If you want to know what genes are different between lesion and treated, compare them to each other.
Votes
Comment: recount 3 protect read length metadata
Answer: Doubts about manipulation and annotation of microarray files deposited at GEO
C: Batch correction in DESeq2
Comment: Strand information in a GAlignmentsList object derived from strand-specific pair
Comment: Strand information in a GAlignmentsList object derived from strand-specific pair
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