Fix partial var rename, bad links, redocument

* Fix partial rename of variable `as_of_tbl` -> `as_of_df` in `epix_slide`
  implementation.
* Fix some bad links:
  * Fix transposition of link text and destination
  * Fix link text containing formatting, which is not allowed
* Re-`document()`

Author: lcbrooks

R/grouped_epi_archive.R

@@ -301,7 +301,7 @@ grouped_epi_archive =
               count =
                 if (length(comp_effective_key_vars) != 0L) {
                   comp_effective_key_vals_in_comp_input =
-                    if (is.data.table(.data_group)) {
+                    if (data.table::is.data.table(.data_group)) {
                       .data_group[, comp_effective_key_vars, with=FALSE]
                     } else {
                       .data_group[, comp_effective_key_vars]
@@ -446,7 +446,7 @@ grouped_epi_archive =
                 #    include version column.
                 # * `group_modify_fn`, the corresponding `.f` argument
                 if (!all_versions) {
-                  as_of_tbl = as_of_raw
+                  as_of_df = as_of_raw
                   group_modify_fn = comp_one_grp
                 } else {
                   as_of_archive = as_of_raw
@@ -469,7 +469,7 @@ grouped_epi_archive =
                                     ref_time_value,
                                     comp_effective_key_vars,
                                     new_col) {
-                    # .data_group is coming from as_of_tbl as a tibble, but we
+                    # .data_group is coming from as_of_df as a tibble, but we
                     # want to feed `comp_one_grp` an `epi_archive` backed by a
                     # DT; convert and wrap:
                     data.table::setattr(.data_group, "sorted", dt_key)

R/methods-epi_archive.R

@@ -517,7 +517,7 @@ epix_detailed_restricted_mutate = function(.data, ...) {
 #'   [`dplyr::mutate`]-like syntax here to calculate new columns on which to
 #'   perform grouping, but note that, if you are regrouping an already-grouped
 #'   `.data` object, the calculations will be carried out ignoring such grouping
-#'   (same as [in \code{dplyr}][dplyr::group_by]).
+#'   (same as [in dplyr][dplyr::group_by]).
 #' * In `ungroup`: either
 #'   * empty, in order to remove the grouping and output an `epi_archive`; or
 #'   * variable name(s) or other ["tidy-select"][dplyr::dplyr_tidy_select]

R/slide.R

@@ -5,7 +5,7 @@
 #' examples.
 #'
 #' @param x The `epi_df` object under consideration,
-#'   [`dplyr::group_by`][grouped] or ungrouped. If ungrouped, all data in `x`
+#'   [grouped][dplyr::group_by] or ungrouped. If ungrouped, all data in `x`
 #'   will be treated as part of a single data group.
 #' @param f Function, formula, or missing; together with `...` specifies the
 #'   computation to slide. To "slide" means to apply a computation within a