Question: Finding genes with significant linear regression, or trend
gravatar for Assaf Oron
11.6 years ago by
Assaf Oron40
Assaf Oron40 wrote:
Daniel hi, You can also try the function "lmPerGene" from the new package GSEAlm. This function allows for continuous covariates without recoding them as factors. The function returns an object, say "mylm". To get the t-statistics, divide "mylm$coefficients" by "sqrt(mylm$coef.var)". Note that the coefficients and their variances are matrices with the first row being the intercept. You can then take these t-statistics to your favorite significance/FDR sofware. You can also use it for gene-set-enrichment analysis (see the GSEAlm vignette for more details). If you try to use the function and have more questions, you can write me directly. Assaf
gsealm • 308 views
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