Showing : normalized counts • reset
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scran/scater Normalized matrix
scran scater normalized counts
updated 6.0 years ago by ★ 28k • written 6.0 years ago by ▴ 90
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2
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1.3k
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Get normalized COUNTS Deseq2
deseq2 normalized counts
updated 6.1 years ago by ★ 13k • written 6.1 years ago by • 0
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0
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1.6k
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DESeq2: Extract mean normalized log2 counts by level
normalized counts log2
6.3 years ago agdif ▴ 10
4
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2
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8.2k
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DESeq2 : normalized counts
rnaseq deseq2 normalized counts
updated 6.6 years ago by 43k • written 6.6 years ago by ▴ 10
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14
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5.3k
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DESeq2 count normalization
deseq2 normalization normalized counts
updated 6.8 years ago by 43k • written 6.8 years ago by • 0
1
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4
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1.8k
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Normalized counts after fitting linear model with batch effects - edgeR
edger batch effect normalized counts
updated 7.0 years ago by ★ 7.9k • written 7.0 years ago by • 0
4
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2
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1.5k
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Normalize to additional variable (brain weight) in DESeq2
deseq2 cqn normalization normalized counts
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
2
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1
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1.2k
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Problems with Edge R normalization in same sample but using different ref genomes.
normalized counts grch37 grch38 r bioconductor
7.2 years ago salvocomplicazioni1 • 0
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2
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1.8k
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cn.MOPS - reporting log normalized read counts as table
cn.mops log normalized counts table
updated 7.4 years ago by ▴ 540 • written 7.4 years ago by • 0
1
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3
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1.6k
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DESeq2: Do basemean values take into account interaction effects?
deseq2 counts normalized counts
updated 8.4 years ago by ★ 13k • written 8.4 years ago by ▴ 40
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2
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Analysis of shRNA screen data
shrna edger deseq2 differential expression normalized counts
8.4 years ago Jane Merlevede ▴ 90
1
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6
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3.1k
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Diffbind EdgeR and DESeq2 normalization
diffbind normalized counts
8.5 years ago GFM ▴ 20
12 results • Page 1 of 1
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Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0
Thank you. What is the difference between setting robust=TRUE in glmQLFit and estimateGLMRobustDisp? The paper i mentioned in the post used…
Comment: PCA of different bacterial species by Jeremy • 0
Your approach of using ~2500 single-copy orthologs and normalizing with VST or rlog for PCA is valid for exploring general clustering [pap…
Comment: RnBeads::combine() - error? by Urotree • 0
pheno <- rnb.set.arrays@pheno # Phenotypic data sites <- rnb.set.arrays@sites # CpG site definitions (data.frame) meth <- rnb.set…
Comment: RnBeads::combine() - error? by Urotree • 0
![enter image description here][1] [1]: /media/images/40d9778d-b044-4405-9b3d-2ba835f6 Hi, after I convert to RnBiseqSet, it shows "All…
Comment: RnBeads::combine() - error? by Urotree • 0
rnb.set.biseq <- RnBiseqSet( pheno = pheno, sites = sites, meth = meth, covg = NULL, # This can be NULL if coverage …
Votes
Answer: Incorporating Salmon offset matrix into Wilcoxon DEG analysis
scater/scran with TPMs from Salmon - counts?
A: Full length single-cell RNA-seq - tximport output for downstream analysis
Answer: Understanding tximport working with salmon outputs
Answer: enrichGOgradient color change
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