I have a data frame of the format:
PartitionA PartitionB HA HB IAB pval
All Kingdom 5 3 2.3 0
All Phylum 5 4 3.1 .09
The p-values in the last column are associated with the column IAB. I am trying to convert this into a LaTeX table that looks like this:
\begin{tabular}{ccccc}
\hline
Partition $A$ & Partition $B$ & $H(A)$ & $H(B)$ & $MI_{AB}$ \\
\hline
All & Kingdom & 5 & 3 & 2.3^{***} \\
All & Phylum & 5 & 4 & 3.1 \\
\hline
\end{tabular}
I have used xtable before to generate basic LaTeX tables from data frames like this. The thing I can't figure out how to do through R is to add significance stars to the last LaTeX column based on the p-values in my data frame. Is there a way to automatically add these significance stars using an R package like stargazer or xtable? I don't use a linear model to generate them, which makes it difficult to use the packages that require a model object. I would like to have three significance levels: * for p < .05, ** for p < .01, and *** for p < .001.
Look at the symnum() function. (This is what print.summary.lm() and others use). There is an example in the ?symnum help page doing pretty much exactly this
pval <- rev(sort(c(outer(1:6, 10^-(1:3)))))
symp <- symnum(pval, corr = FALSE,
cutpoints = c(0, .001,.01,.05, .1, 1),
symbols = c("***","**","*","."," "))
noquote(cbind(P.val = format(pval), Signif = symp))
It should be easy to customize to whatever you like.