Showing : contrast matrix • reset
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Designating contrasts in diffSpliceDGE to test for nested effects
diffSpliceDGE Contrast matrix edger
updated 22 months ago by 46k • written 22 months ago by • 0
0
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4
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544
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Agilent two-color microarray analysis with limma: 2x3 factorial design
limma microarray contrast matrix 2x3 factorial design differential expression
updated 2.3 years ago by 46k • written 2.4 years ago by • 0
5
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5
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706
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Design and Contrast Matrix for Linear Model. To Combine or not to Combine?
limma design and contrast matrix design matrix contrast matrix
updated 3.9 years ago by 60k • written 3.9 years ago by ▴ 260
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1.4k
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Help to understand my contrast.matrix and to interpret my topTable results
contrast matrix toptable makecontrasts differential gene expression
4.9 years ago stinehedensted • 0
1
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2
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813
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differentially expressed genes without contrasts
limma toptable makecontrasts contrast matrix
updated 5.1 years ago by 7.8k • written 5.1 years ago by • 0
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2
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2.0k
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Time-course analysis with limma for >3 time points
limma contrast matrix design matrix multiple time points timecourse
updated 15 months ago by • 0 • written 5.1 years ago by ▴ 20
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1
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750
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Syntax of DESeq2 contrast argument for all pairwise comparisons
deseq2 contrast matrix
updated 5.5 years ago by 37k • written 5.5 years ago by • 0
4
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7
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752
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Design matrix and contrast for RNA knockdown experiment
design matrix limma contrast matrix
updated 5.8 years ago by ★ 27k • written 5.8 years ago by ▴ 140
4
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What is the correct contrast matrix if one treatment must be compared to both of the other two treatments, but separately?
edger limma model.matrix contrast matrix design matrix
updated 6.1 years ago by ▴ 640 • written 6.1 years ago by • 0
9 results • Page 1 of 1
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Comment: OPLS-DA: confidence interval for accuracy metric by etienne.thevenot ▴ 20
- The bootstrapping approach can be used to compute the CIs: see here for an example: Mendez et al. (2019). « A comparative evaluation …
Comment: Data input for aracne2regulon function in viper package by xlal • 0
You are right!And may be we should check the gene symbols cause when I open the expression matrix in EXCEL,it will change some genes into m…
Comment: unable to install.packages("spatialLIBD") by Leonardo Collado Torres ▴ 1000
All the solutions Lori proposed are valid. The `STexampleData` package I think has only 1 of our samples (see https://bioconductor.org/pack…
Answer: how to use Rsamtools to parse extra fields from STAR alignment by Martin Morgan 25k
The 'extra columns' are called 'tags' in the SAM specification. Following the documentation `?ScanBamParam` you should add `tag = "NH"`. Se…
Comment: DEXSeq: Error in reading counts from htseq "Error in FUN(X[[i]], ...) : subscrip by Delta._.43 ▴ 10
Yes, indeed it is the same error. Here are the first few lines of my count file. ``` "ENSG00000000003":"001" 0 "ENSG00000000003":"002" 1032…
Votes
Answer: spot- vs cell-level data access
Answer: unable to install.packages("spatialLIBD")
Comment: unable to install.packages("spatialLIBD")
error running UniProt.ws
Answer: DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FU
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