Bioconductor Glmfit

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edger edger main and interaction effects glmfit

updated 5.0 years ago by Aaron Lun ★ 28k • written 5.0 years ago by D • 0

3

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edger rnaseq glm glmfit

updated 6.9 years ago by Aaron Lun ★ 28k • written 6.9 years ago by alessia.donato • 0

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edger standard error glmfit

6.9 years ago david.hughes • 0

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edger glmfit glmlrt()

updated 7.6 years ago by Aaron Lun ★ 28k • written 7.6 years ago by cadeans • 0

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Answer: error in ChAMP loading file by noweye1216 • 0

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Comment: DeSEQ 2 Error: some values in assay are negative by James W. MacDonald 63k

In order to back up your assertion that there are no negative values, you should provide evidence. For example ``` any(countData < 0) dds …

Answer: DeSEQ 2 Error: some values in assay are negative by Michael Love 40k

You don't need to remove 0's. What do you get with ``` any(countData < 0) ``` (fixed, typo first time around)

Comment: Interpret plot from DiffBind by Rory Stark ★ 4.9k

See above, you want the sites where `Fold > 0`.

Comment: Interpret plot from DiffBind by Rory Stark ★ 4.9k

That does seem like you have a very high number of open chromatin sites changing. How many are in the consensus matrix? You can see how ma…

Votes

DESeq2 for time-course with nested individuals

Answer: Using PEER to identify hidden confounders in RNA-seq data (not working)

Answer: P-value histogram of testLinearModel is not uniform

Answer: Interpret plot from DiffBind

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