Showing : paired analysis • reset
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adapter trimming paired vs unpaired reads
rna seq trimmomatic trimming adapter trimming paired analysis
3.3 years ago Mozart ▴ 20
2
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4
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What's the best way to use "semi" technical replicates with biological replicates?
limma technical replicates biological replicates paired analysis
updated 3.4 years ago by ★ 27k • written 3.4 years ago by ▴ 50
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Paired DE analysis in edgeR with trios of samples while blocking for various confounders
edger rnaseq paired analysis design matrix
3.4 years ago svlachavas ▴ 800
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2
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Comparing groups with paired samples by using limma
limma paired analysis
updated 3.5 years ago by 46k • written 3.5 years ago by • 0
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8
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595
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Unexpected differences in results from paired analysis with DESeq2
DESEq2 paired analysis factor levels
updated 4.3 years ago by 37k • written 4.3 years ago by • 0
5 results • Page 1 of 1
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Answer: Design and contrast matrices for analyzing the effect of two factors of interest by Gordon Smyth 46k
> In a typical regression, I would just add them to the model when estimating my coefficients of interest Why not do the same with limma? …
Comment: TPM normalization starting with read counts by Gordon Smyth 46k
> So you think my method in TPM normalization that I introduced above is not good? Your computation of RPKM using edgeR is fine, provided …
Comment: error in package GenVisR while installing by 堃 • 0
Package ‘FField’ was removed from the CRAN repository.[enter link description here][1] I installed FField by using remotes::install_github…
Comment: DESeq 2 failes to load by Ruggero • 0
This solved the error, in case someone else is having compilation errors from installing RSQllite: install.packages('RSQLite', repos='http…
Comment: pathview says my nonmodel species is unknown: "species invalid" by Guido Hooiveld ★ 3.3k
A while ago a faced the same for another non-model organism. I was able to get it working using a 'hack'. This hack is nothing more than m…
Votes
DiffBind affinity vs occupancy Heatmaps
Answer: How to remove dendrogram from pheatmaps?
A: conceptual question about FDR, FDR adjusted p-value and q-value
A: conceptual question about FDR, FDR adjusted p-value and q-value
A: How to select summit size for histone ChiP-Seq in Diffbind
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