Yes I do mean the design formula factors. Sorry I was not clear. I have found this package online: https://www.bioconductor.org/packages/release/bioc/vignettes/variancePartition/inst/doc/variancePartition.pdf and wondering if this is something common that people use in conjunction with Deseq2?
DESeq2: Variable Importance
Is there a way to obtain the relative importance of a variable in the DESeq2 model? I know you can run a likelihood ratio test with a reduced model that does not include the factor to see if it is significant or not. But is there something similar to when you have a multiple linear regression model and calculate the proportion of R-squared associated with each variable?
• 1,544 views
•
link
updated
by
Kevin Blighe
•
written
by
gt •
•
written
by
gt •
1 answer
You must mean the terms of the design formula? There are different ways to define 'importance', including beta coefficient, Gini coefficient, or even PCA-based methods. You may post this on Bioconductor support, where the DESeq2 maintainer will probably reply: https://support.bioconductor.org/
• 0 views
•
link
written
by
Kevin Blighe
Log in to answer this question.
More posts like this
-
DESeq2 LRT test with multifactorial design
written by lessismore
-
BMI as a continuous variable is my outcome, which type data i should put to calculate
written by jiefei •
-
Interpreting likelihood ratio tests using DESeq2
written by jdhindsa1999 •
-
Can the odds ratio change based on a multiple logistic regression model?
written by Bioman •
-
DESeq2 likelihood ratio test log fold change interpretation/calculation
written by Argonaut •
-
Interaction terms and main effects in DESeq2
written by Aspire
-
How to calculate odds ratio in a GWAS using GEMMA output?
written by maya123z •
-
Transcripts with beta close to zero are considered differentially expressed in a likelihood-ratio t…
written by Antonio Camargo
-
Can I conduct likelihood ratio test with robust linear regression?
written by gaol •
-
95%CI for Rsquared in linear regression
written by toyan.j.p •
User has posted on Bioconductor: https://support.bioconductor.org/p/9137718/#9137718