diff --git a/DESCRIPTION b/DESCRIPTION
index 4ebad49..b756763 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -75,7 +75,6 @@ Imports:
     limma (>= 3.54.0),
     magrittr (>= 2.0.3),
     MAST (>= 1.24.0),
-    lme4,
     methods,
     monocle3 (>= 1.3.1),
     paletteer (>= 1.5.0),
diff --git a/R/cluster_sce.R b/R/cluster_sce.R
index 12f1488..5b97e01 100644
--- a/R/cluster_sce.R
+++ b/R/cluster_sce.R
@@ -7,10 +7,17 @@
 #' UMAP_Liger, tSNE_Liger.
 #' @param resolution Clustering resolution. If NULL, clustering method will be
 #' set to louvain.
-#' @param K Integer number of nearest neighbors to use when creating the k
+#' @param k Integer number of nearest neighbors to use when creating the k
 #' nearest neighbor graph for Louvain/Leiden clustering.
 #' k is related to the resolution of the clustering result, a bigger k will
 #' result in lower resolution and vice versa. Default is 50.
+#' @param louvain_iter Integer number of iterations used for Louvain clustering.
+#' The clustering result giving the largest modularity score will be used
+#' as the final clustering result. Default is 1. Note that if num_iter
+#' is greater than 1, the random_seed argument will be ignored
+#' for the louvain method.
+#' @param verbose A logic flag to determine whether or not we should print
+#' the run details.
 #' @param ... see monocle3::cluster_cells for more clustering options.
 #'
 #' @return sce a SingleCellExperiment object annotated with reducedDims
@@ -23,9 +30,9 @@
 #' @export
 
 cluster_sce <- function(sce,
-                        cluster_method = "leiden",
+                        cluster_method = "louvain",
                         reduction_method = "UMAP_Liger",
-                        resolution = 1e-5,
+                        resolution = NULL,
                         k = 50,
                         louvain_iter = 1,
                         verbose = T,
diff --git a/R/map_with_ewce.R b/R/map_with_ewce.R
index 133db3f..6a546c5 100644
--- a/R/map_with_ewce.R
+++ b/R/map_with_ewce.R
@@ -263,9 +263,9 @@ map_celltypes_sce <- function(sce,
 ### Allow variation in annotation level
 
 .map_celltypes <- function(ctdToMap,
-                           ctdToMapAgainst = MAGMA.Celltyping::ctd_Tasic,
+                           ctdToMapAgainst,
                            inputSpecies = "human",
-                           mapAgainstSpecies = "mouse",
+                           mapAgainstSpecies = "human",
                            annotLevel = 1,
                            numTopMarkers = 50,
                            mappingLevel = 2,
diff --git a/man/cluster_sce.Rd b/man/cluster_sce.Rd
index 89d5db5..d93fa80 100644
--- a/man/cluster_sce.Rd
+++ b/man/cluster_sce.Rd
@@ -6,9 +6,9 @@
 \usage{
 cluster_sce(
   sce,
-  cluster_method = "leiden",
+  cluster_method = "louvain",
   reduction_method = "UMAP_Liger",
-  resolution = 1e-05,
+  resolution = NULL,
   k = 50,
   louvain_iter = 1,
   verbose = T,
@@ -26,12 +26,21 @@ UMAP_Liger, tSNE_Liger.}
 \item{resolution}{Clustering resolution. If NULL, clustering method will be
 set to louvain.}
 
-\item{...}{see monocle3::cluster_cells for more clustering options.}
-
-\item{K}{Integer number of nearest neighbors to use when creating the k
+\item{k}{Integer number of nearest neighbors to use when creating the k
 nearest neighbor graph for Louvain/Leiden clustering.
 k is related to the resolution of the clustering result, a bigger k will
 result in lower resolution and vice versa. Default is 50.}
+
+\item{louvain_iter}{Integer number of iterations used for Louvain clustering.
+The clustering result giving the largest modularity score will be used
+as the final clustering result. Default is 1. Note that if num_iter
+is greater than 1, the random_seed argument will be ignored
+for the louvain method.}
+
+\item{verbose}{A logic flag to determine whether or not we should print
+the run details.}
+
+\item{...}{see monocle3::cluster_cells for more clustering options.}
 }
 \value{
 sce a SingleCellExperiment object annotated with reducedDims
diff --git a/man/dot-map_celltypes.Rd b/man/dot-map_celltypes.Rd
index a226341..f4e713c 100644
--- a/man/dot-map_celltypes.Rd
+++ b/man/dot-map_celltypes.Rd
@@ -6,9 +6,9 @@
 \usage{
 .map_celltypes(
   ctdToMap,
-  ctdToMapAgainst = MAGMA.Celltyping::ctd_Tasic,
+  ctdToMapAgainst,
   inputSpecies = "human",
-  mapAgainstSpecies = "mouse",
+  mapAgainstSpecies = "human",
   annotLevel = 1,
   numTopMarkers = 50,
   mappingLevel = 2,