Showing : SingleCellData • reset
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Integration of Single Cell Experiments with batchelor::fastMNN
fastMNN SingleCellData BatchEffect batchelor
3 months ago José • 0
0
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1
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463
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Is CEMiTool for gene coexpression analysis suitable for single cell RNA Seq data?
SingleCellData CEMiTool
updated 5 months ago by 67k • written 5 months ago by • 0
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496
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Dimensionality reduction visualization
imcRtools SingleCellData imcdatasets SpatialWorkflow
updated 12 months ago by 67k • written 12 months ago by • 0
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7
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2.1k
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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 14 months 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 14 months ago by ★ 4.6k • written 14 months ago by • 0
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3
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1.1k
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insufficient unique points for computing knee/inflection points
DropletUtils SingleCellData
updated 18 months ago by ★ 4.6k • written 18 months ago by • 0
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1.6k
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Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
19 months ago Matvii Mykhailichenko • 0
1
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925
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Job: Research Assistant - Computational Biology/Immunology, Memorial Sloan Kettering, New York
SingleCellData ComputationalBiology
22 months ago Chrysothemis ▴ 10
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975
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Job: Job as a bioinformatician in Hamburg, Germany
DimensionReduction SingleCellData multiomics MachineLearning
2.1 years ago Diego's • 0
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717
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Gene Id duplicated
SingleCell SingleCellData
updated 2.3 years ago by ★ 4.6k • written 2.3 years ago by • 0
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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
2.4 years ago k1m ▴ 20
2
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4
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1.2k
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Summary of library size factor is all equal to one
SingleCell SingleCellData SingleCellWorkflow SingleCellExperiment
2.4 years ago Romina • 0
0
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1
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1.2k
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Splatter (unknown correlation between gene expression level in different cell types)
SingleCellData splatter
updated 2.7 years ago by ▴ 50 • written 2.8 years ago by • 0
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1.0k
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Running PLAGE gets killed
GSVA SingleCellData
updated 2.9 years ago by ★ 3.4k • written 2.9 years ago by • 0
2
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1
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2.1k
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Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 3.0 years ago by 67k • written 3.0 years ago by • 0
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3
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2.2k
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10X FeatureBarcode producing too many "cells"
SingleCellExperiment DropletUtils SingleCellData
updated 4.1 years ago by ★ 28k • written 4.1 years ago by ▴ 10
16 results • Page 1 of 1
Recent ...
Replies
Answer: I am having issues with bowtie2_build by James W. MacDonald 67k
Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…
Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k
Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…
Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k
FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…
Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10
I see. Thank you ATpoint!
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0
Thanks James!
Votes
Answer: Unable to install nloptr
Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?
C: How does edgeR cpm function calculate log(CPM) values?
Answer: Selection of correct coefficients or contrasts in DESeq2
Answer: Selection of correct coefficients or contrasts in DESeq2
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