Showing : singleCellExperiment • reset
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When should I correct for batch effects
BatchEffect SingleCellExperiment
updated 3 months ago by 66k • written 3 months ago by • 0
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6
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601
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Merging of Human and Mouse SingleCellExperiment Objects Error
SingleCellExperiment
4 months ago Dario Strbenac ★ 1.5k
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177
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rpk per cell saved in SCE object.
SingleCellExperiment
4 months ago JalapenoCornbread • 0
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3
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524
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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 months ago by • 0 • written 5 months ago by • 0
1
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2
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964
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Reduce single cell experiment size to use as reference for annotation with SingleR
SingleR SingleCellExperiment
5 months ago elgomez • 0
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523
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Subsetting cells from a single cell experiment
SingleCellExperiment
written 7 months ago by • 0
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3
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1.8k
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Combining and using 10x Genomics output in SingleCellExperiment Objects
SingleCellExperiment
written 5.1 years ago by ▴ 360
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5
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887
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Recommendation for large.n in filterByExpr
scRNAseq edgeR SingleCellExperiment
9 months ago duez.tolga • 0
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2
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950
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Error in SingleR, no common genes between 'test' and 'ref'
singleR SingleCellExperiment SingleCellData
10 months ago Matvii Mykhailichenko • 0
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2
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861
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runPCA in a SingleCellExperiment results ina colMeans error
scran SingleCellExperiment
11 months ago Lluís Revilla Sancho ▴ 730
10 results • Page 1 of 1
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Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 66k
If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …
Comment: Help with ENmix readidat by James W. MacDonald 66k
Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …
Comment: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 66k
In that case, probably easiest to subset to the groups being compared.
Comment: Help with ENmix readidat by minardsmitha ▴ 10
Did you figure this out? I have the same issue.
Comment: LRT, more than two conditions and pairwise comparisons by boczniak767 ▴ 720
Thank you for response, apparently I still don't know much about statistics. In fact I want to campare time-profiles [and the LRT has been …
Votes
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
Comment: DESeq2- Mysterious interaction suppresses DEGs
Answer: DESeq2- Mysterious interaction suppresses DEGs
Answer: Subsetting RNAseq data | voomaByGroup()
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