diff --git a/R/fit_peaks.R b/R/fit_peaks.R
index 65cf473..0bd8c61 100644
--- a/R/fit_peaks.R
+++ b/R/fit_peaks.R
@@ -172,9 +172,9 @@ find_peaks <- function(y, smooth_type = c("gaussian", "box", "savgol",
 #'
 #' * Naish, P. J. & Hartwell, S. 1988. Exponentially Modified Gaussian functions - A
 #' good model for chromatographic peaks in isocratic HPLC? \emph{Chromatographia},
-#' /bold{26}: 285-296. \doi{10.1007/BF02268168}.
+#' \bold{26}: 285-296. \doi{10.1007/BF02268168}.
 #' @export fit_peaks
-
+#' @md
 fit_peaks <- function (x, lambda, pos = NULL, sd.max = 50,
                        fit = c("egh", "gaussian", "raw"),  max.iter = 1000, 
                        estimate_purity = TRUE, noise_threshold = .001, ...){
diff --git a/R/get_peaktable.R b/R/get_peaktable.R
index 2bb4706..ddedf38 100644
--- a/R/get_peaktable.R
+++ b/R/get_peaktable.R
@@ -54,7 +54,7 @@
 #' weight given to spectral correlation if \code{sp.rt} is selected.
 #' @param deepSplit Logical. Controls sensitivity to cluster splitting. If
 #' \code{TRUE}, function will return more smaller clusters. See documentation for
-#' \code{\link{cutreeDynamic}} for additional information.
+#' \code{\link[dynamicTreeCut]{cutreeDynamic}} for additional information.
 #' @param verbose Logical. Whether to print warning when combining peaks into 
 #' single time window. Defaults to \code{FALSE}.
 #' @param out Specify `data.frame` or `matrix` as output. Defaults to
diff --git a/R/get_purity.R b/R/get_purity.R
index 04a88f0..b343cf6 100644
--- a/R/get_purity.R
+++ b/R/get_purity.R
@@ -20,7 +20,7 @@
 #' @references
 #' Stahl, Mark. “Peak Purity Analysis in HPLC and CE Using Diode-Array Technology.”
 #' Agilent Technologies, April 1, 2003, 16.
-#' /href{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
+#' \url{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
 #' @author Ethan Bass
 #' @keywords internal
 #' @export
@@ -98,7 +98,7 @@ find_noise <- function(x, noise_threshold = 0.01, lambdas){
 #' @references
 #' Stahl, Mark. “Peak Purity Analysis in HPLC and CE Using Diode-Array Technology.”
 #' Agilent Technologies, April 1, 2003, 16.
-#' /href{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
+#' \url{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
 #' @author Ethan Bass
 #' @keywords internal
 #' @export
@@ -131,7 +131,7 @@ get_agilent_threshold <- function(x, pos, weight = 1, noise_variance = NULL,
 #' @references
 #' Stahl, Mark. “Peak Purity Analysis in HPLC and CE Using Diode-Array Technology.”
 #' Agilent Technologies, April 1, 2003, 16.
-#' /href{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
+#' \url{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
 #' @author Ethan Bass
 #'@noRd
 
@@ -155,7 +155,7 @@ get_spectral_similarity <- function(x, pos){
 #' @references
 #' Stahl, Mark. “Peak Purity Analysis in HPLC and CE Using Diode-Array Technology.”
 #' Agilent Technologies, April 1, 2003, 16.
-#' /href{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
+#' \url{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
 #' @author Ethan Bass
 #' @noRd
 
diff --git a/man/fit_peaks.Rd b/man/fit_peaks.Rd
index 780d088..5c0996e 100644
--- a/man/fit_peaks.Rd
+++ b/man/fit_peaks.Rd
@@ -80,13 +80,14 @@ data(Sa_pr)
 fit_peaks(Sa_pr[[1]], lambda = 220)
 }
 \references{
-* Lan, K. & Jorgenson, J. W. 2001. A hybrid of exponential and gaussian
+\itemize{
+\item Lan, K. & Jorgenson, J. W. 2001. A hybrid of exponential and gaussian
 functions as a simple model of asymmetric chromatographic peaks. \emph{Journal of
 Chromatography A} \bold{915}:1-13. \doi{10.1016/S0021-9673(01)00594-5}.
-
-* Naish, P. J. & Hartwell, S. 1988. Exponentially Modified Gaussian functions - A
+\item Naish, P. J. & Hartwell, S. 1988. Exponentially Modified Gaussian functions - A
 good model for chromatographic peaks in isocratic HPLC? \emph{Chromatographia},
-/bold{26}: 285-296. \doi{10.1007/BF02268168}.
+\bold{26}: 285-296. \doi{10.1007/BF02268168}.
+}
 }
 \seealso{
 \code{\link{find_peaks}}, \code{\link{get_peaks}}
diff --git a/man/get_agilent_threshold.Rd b/man/get_agilent_threshold.Rd
index 2c86668..b7018c1 100644
--- a/man/get_agilent_threshold.Rd
+++ b/man/get_agilent_threshold.Rd
@@ -38,7 +38,7 @@ Calculate purity thresholds
 \references{
 Stahl, Mark. “Peak Purity Analysis in HPLC and CE Using Diode-Array Technology.”
 Agilent Technologies, April 1, 2003, 16.
-/href{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
+\url{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
 }
 \author{
 Ethan Bass
diff --git a/man/get_peaktable.Rd b/man/get_peaktable.Rd
index cfb852c..58d5fb8 100644
--- a/man/get_peaktable.Rd
+++ b/man/get_peaktable.Rd
@@ -58,7 +58,7 @@ weight given to spectral correlation if \code{sp.rt} is selected.}
 
 \item{deepSplit}{Logical. Controls sensitivity to cluster splitting. If
 \code{TRUE}, function will return more smaller clusters. See documentation for
-\code{\link{cutreeDynamic}} for additional information.}
+\code{\link[dynamicTreeCut]{cutreeDynamic}} for additional information.}
 
 \item{verbose}{Logical. Whether to print warning when combining peaks into
 single time window. Defaults to \code{FALSE}.}
diff --git a/man/get_purity.Rd b/man/get_purity.Rd
index ae2ae07..22c7089 100644
--- a/man/get_purity.Rd
+++ b/man/get_purity.Rd
@@ -47,7 +47,7 @@ comprising the peak, using the method described in Stahl 2003.
 \references{
 Stahl, Mark. “Peak Purity Analysis in HPLC and CE Using Diode-Array Technology.”
 Agilent Technologies, April 1, 2003, 16.
-/href{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
+\url{https://www.agilent.com/cs/library/applications/5988-8647EN.pdf}
 }
 \author{
 Ethan Bass