Showing : glmlrt() • reset
2
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EdgeR User Guide: use of glmLRT vs glmQLF in oral carcinoma Case Study
edger design matrix glmlrt() glmQFTest() paired design
7.0 years ago oakhamwolf • 0
4
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15
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2.7k
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Adjusting for procedural effect and deciding on statistical test
EdgeR glmlrt() ql f-test
9.0 years ago • updated 8.3 years ago elineverbon ▴ 20
0
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7
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4.3k
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Computing contrasts with a covariate using edgeR glmLRT()
edger contrast covariate glmlrt()
8.5 years ago Jeff Skinner • 0
1
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6
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1.6k
views
design of edgeR GLM test
edger differential gene expression glmlrt()
8.9 years ago • updated 8.8 years ago simarsidhu25 • 0
4
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7
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3.5k
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Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
edger differential gene expression glmlrt()
8.9 years ago simarsidhu25 • 0
7
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5
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4.3k
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edgeR effects of design on testing main effects and interactions
edger glmfit glmlrt()
updated 10.0 years ago by ★ 29k • written 10.0 years ago by • 0
4
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8
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2.4k
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EdgeR: batches and samples over-specify system, how to contrast un-modeled variables?
edger glmlrt() differential expression design and contrast matrix
updated 10.3 years ago by 53k • written 10.4 years ago by • 0
5
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7
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4.7k
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How to specify 'contrast' in glmLRT command when treatments in design matrix are named with numbers, not letters
edger rnaseq glmlrt()
updated 10.6 years ago by 68k • written 10.6 years ago by • 0
6
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7
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7.9k
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EdgeR: glmLRT(), Multifactorial designs and correction for multiple testing
edgeR glmLRT() multiple factor design multiple testing correction
updated 10.8 years ago by ★ 29k • written 10.8 years ago by ▴ 80
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Answer: Using DESeq2 for age prediction by ATpoint ★ 5.0k
The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
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