Bioconductor Batch Correction

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1.6k

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scrna-seq integration batch correction

updated 4.3 years ago by Aaron Lun ★ 28k • written 4.3 years ago by p.joshi ▴ 40

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995

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methylation ComBat Linear models batch correction AIC

updated 4.4 years ago by Kevin Blighe ★ 3.9k • written 4.5 years ago by lucasmiranda42 • 0

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620

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DESeq2 batch correction

updated 4.5 years ago by James W. MacDonald 65k • written 4.5 years ago by MT ▴ 10

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956

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Diffbind ATAC batch correction blocking factor

updated 4.8 years ago by Rory Stark ★ 5.2k • written 4.8 years ago by rm1238 • 0

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1.0k

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deseq2 differential expression batch correction design

updated 4.9 years ago by Michael Love 42k • written 4.9 years ago by wunderl ▴ 40

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1.4k

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deseq2 differential expression batch correction

updated 4.9 years ago by Michael Love 42k • written 4.9 years ago by wunderl ▴ 40

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1.8k

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SC3 Scater Scran scRNA-Seq Batch Correction

updated 5.1 years ago by Vladimir Kiselev ▴ 150 • written 5.1 years ago by hamza_karakurt ▴ 50

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Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 65k

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 65k

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 65k

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 …

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Comment: DESeq2- Mysterious interaction suppresses DEGs

Answer: DESeq2- Mysterious interaction suppresses DEGs

Answer: Subsetting RNAseq data | voomaByGroup()

biomaRt not working - lazy table error

Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it

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