Showing : Batch Correction • reset
3
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fastMNN based correction for large multi-run experiment requires a similar population set in all the individual datasets?
scrna-seq integration batch correction
updated 5.2 years ago by ★ 28k • written 5.2 years ago by ▴ 40
0
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1
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1.4k
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Batch correction in Linear Models for methylation data
methylation ComBat Linear models batch correction AIC
updated 5.3 years ago by ★ 4.0k • written 5.3 years ago by • 0
5
votes
3
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840
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batch correction in DESeq2 > matrix not full rank > mitigate
DESeq2 batch correction
updated 5.4 years ago by 68k • written 5.4 years ago by ▴ 10
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3
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1.2k
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Diffbind batch effect blocking error
Diffbind ATAC batch correction blocking factor
updated 5.6 years ago by ★ 5.2k • written 5.6 years ago by • 0
1
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1
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1.2k
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All Pairwise Comparisons with DESeq2 While Controlling for Batch Effects: Does Reference Level Matter?
deseq2 differential expression batch correction design
updated 5.8 years ago by 43k • written 5.8 years ago by ▴ 40
4
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4
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1.8k
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Batch Correction: DESeq2 Linear Model vs Batch-Correction-Specific Algorithms (RUV, ComBat, ect.)
deseq2 differential expression batch correction
updated 5.8 years ago by 43k • written 5.8 years ago by ▴ 40
4
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5
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2.3k
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Using SC3 with batch corrected MNN values
SC3 Scater Scran scRNA-Seq Batch Correction
updated 6.0 years ago by ▴ 150 • written 6.0 years ago by ▴ 60
7 results • Page 1 of 1
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Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k
We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…
Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k
It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Benjamin ▴ 20
I have received a response from Ensembl regarding the items I have listed above. I wanted to post it here and will continue to post update…
Answer: Error in cnetplot by Guido Hooiveld ★ 4.1k
Unfortunately you did not show how you generated your input data (the object `enrichment`), nor did you show the output from `sessionInfo()…
Answer: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k
I think this is because Ensembl can assign different Gene IDs to "the same gene" if it is found both on a standard chromosome and a scaffol…
Votes
Answer: Explannation for ROAST results
Comment: Limma comparing gene expression between base line and one treatment
Answer: Is there any chance to solve "the model matrix is not full rank" in DESeq2?
clusterProfiler-GO enrichment Error
A: Machine learning in R book
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