papaja and text references knitting to word

Question

I am trying to create text references for tables and figures. However, I do get it to work following the examples in the documentation. There is neither a text reference nor a table caption using either approach. Here is some example script.

    # Results

    See Table \@ref(tab:ResultsANOVAI) or Table \@ref(tab:ResultsANOVAII) for ANOVA results. They show  that ...

    (ref:ResultsANOVAI) Results ANOVA I

    ```{r ANOVAI, warning=FALSE, tab.cap='(ref:ResultsANOVAI)'}
    library(afex)
    daten <- data.frame(vp = rep(1:30, each = 6),
                        cond1 = rep(1:3, each = 2),
                        cond2 = rep(1:2),
                        rt = rnorm(180, 600, 100))

    aov.res <- aov_ez("vp", "rt", daten, within = c("cond1", "cond2"))

    apa_anova <- apa_print.afex_aov(aov.res)
    apa_table(apa_anova$table)
    ```

    A little bit of text after the table.

    (ref:ResultsANOVAI) Results ANOVA II

    ```{r ANOVAII, warning=FALSE}
    apa_anova <- apa_print.afex_aov(aov.res)
    apa_table(apa_anova$table,
              caption = "(ref:ResultsANOVAII)")
    ```

Hints are heartly welcome.

Jens

Answer 1

the following code should work:

    # Results

    See Table \@ref(tab:ANOVAI) or Table \@ref(tab:ANOVAII) for ANOVA results. They     show  that ...

    (ref:ResultsANOVAI) Results ANOVA I

    ```{r ANOVAI, warning=FALSE}
    library(afex)
    daten <- data.frame(vp = rep(1:30, each = 6),
                    cond1 = rep(1:3, each = 2),
                    cond2 = rep(1:2),
                    rt = rnorm(180, 600, 100))

    aov.res <- aov_ez("vp", "rt", daten, within = c("cond1", "cond2"))

    apa_anova <- apa_print.afex_aov(aov.res)
    apa_table(apa_anova$table, caption = "(ref:ResultsANOVAI)")
    ```

    A little bit of text after the table.

    (ref:ResultsANOVAII) Results ANOVA II

    ```{r ANOVAII, warning=FALSE}
    apa_anova <- apa_print.afex_aov(aov.res)
    apa_table(apa_anova$table,
          caption = "(ref:ResultsANOVAII)")
    ```

So why did your code not work?

• When you want to add a caption to a table via text references, add something like caption = "(ref:caption-name)" to your call to apa_table() (the chunk option tab.cap does not work)
• When you are using cross references (i.e., "see Table 1 and 2"), use \@ref(tab:chunk-name) -- your chunk names are ANOVAI and ANOVAII in your example, so it has to be \@ref(tab:ANOVAI) and \@ref(tab:ANOVAII)

Hope this helps!

For further reading, the relevant parts of the papaja manual are here:

• Table captions
• Cross references