Update documentation

satijalab · Sep 18, 2023 · 3a351c9 · 3a351c9
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Showing 4 changed files with 8 additions and 3 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: sctransform
 Type: Package
 Title: Variance Stabilizing Transformations for Single Cell UMI Data
-Version: 0.3.5.9006
-Date: 2023-05-27
+Version: 0.3.5.9007
+Date: 2023-09-18
 Authors@R: c(
   person(given = "Christoph", family = "Hafemeister", email = "[email protected]", role = "aut", comment = c(ORCID = "0000-0001-6365-8254")),
   person(given = "Saket", family = "Choudhary", email = "[email protected]", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5202-7633")),

diff --git a/NEWS.md b/NEWS.md
@@ -14,6 +14,7 @@ All notable changes will be documented in this file.
 - Changed `get_nz_median2` to support `genes` argument; thanks @boomanaiden154 and @ScreachingFire. [#155](https://github.com/satijalab/sctransform/pull/155)
 - Replaced `get_nz_median` with faster alternative `get_nz_median2` across all calls
 - Removed `get_nz_median` 
+- Updated `make_cell_attr` to be flexible for named vectors; thanks @moi-taga [#171](https://github.com/satijalab/sctransform/pull/171)
 
 ## [0.3.5] - 2022-09-21
 

diff --git a/R/utils.R b/R/utils.R
@@ -496,7 +496,8 @@ get_model_var <- function(vst_out, cell_attr = vst_out$cell_attr, use_nonreg = F
 #' Get median of non zero UMIs from a count matrix
 #'
 #' @param umi Count matrix
-#'
+#' @param genes A vector of genes to consider for calculating
+#' the median. Default is NULL which uses all genes.
 #' @return A numeric value representing the median of non-zero entries from the UMI matrix
 get_nz_median2 <- function(umi, genes = NULL){
   if (is.null(genes)) {

diff --git a/man/get_nz_median2.Rd b/man/get_nz_median2.Rd