Bioconductor Glmfit

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edger standard error glmfit

8.4 years ago david.hughes • 0

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edger edger main and interaction effects glmfit

updated 6.5 years ago by Aaron Lun ★ 28k • written 6.5 years ago by D ▴ 10

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edger glmfit glmlrt()

updated 9.1 years ago by Aaron Lun ★ 28k • written 9.1 years ago by cadeans • 0

3

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edger rnaseq glm glmfit

updated 8.4 years ago by Aaron Lun ★ 28k • written 8.4 years ago by alessia.donato • 0

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Comment: fail to use addPerROIQC in Rmd by liu.n • 0

Hi, what's the output from `dim(spe)`?

Answer: DESeq2- merging technical vs biological replicates by Michael Love 43k

Technical replicates (more sequencing of same library) you can use `collapseReplicates()`. But biological replicates are best handled wi…

Answer: lfcShrink and alpha value by Michael Love 43k

`summary()` is just printing a particular `alpha`, but you can do: ``` summary(res, alpha = ...) ```

Answer: DESeq2 dispersion estimates fitting drastically different based on explanatory v by Michael Love 43k

> DESeq2 treats this as a numeric variable with a range from 19560-19660 And it gives a warning to not use this type of covariate, which…

Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0

Yes, I did. Here is my code. data.path <- "~/GeoMx_best_practice/data/" filepath <- paste(data.path, "Joon_QC_NPC_4_…

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Answer: DESeq2- merging technical vs biological replicates

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

Transcript-level differential expression using DESeq2

Comment: What type of counts data to import for performing Isoform analysis in edgeR

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