Skip to content

Commit

Permalink
ud
Browse files Browse the repository at this point in the history
  • Loading branch information
abel.vertesy committed Oct 26, 2023
1 parent 4923395 commit 7112351
Show file tree
Hide file tree
Showing 8 changed files with 16 additions and 9 deletions.
2 changes: 1 addition & 1 deletion NAMESPACE
Original file line number Diff line number Diff line change
@@ -1,5 +1,6 @@
# Generated by roxygen2: do not edit by hand

S3method(drop.levels,Seurat)
S3method(plot,GeneExpHist)
S3method(plot,Metadata.Cor.Heatmap)
S3method(plot,Metadata.categ.pie)
Expand Down Expand Up @@ -70,7 +71,6 @@ export(check.genes)
export(clUMAP)
export(clip10Xcellname)
export(create.metadata.vector)
export(drop.levels.Seurat)
export(find_prefix_in_cell_IDs)
export(fix.orig.ident)
export(fixZeroIndexing.seurat)
Expand Down
2 changes: 1 addition & 1 deletion R/Seurat.Utils.Metadata.R
Original file line number Diff line number Diff line change
Expand Up @@ -694,7 +694,7 @@ plot.Metadata.categ.pie <- function(metacol = 'Singlet.status'
, obj = combined.obj, max.categs = 20, both_pc_and_value = T, ...) {
categ_pivot <- table(obj[[metacol]])
stopifnot(length(categ_pivot) < max.categs)
qpie(categ_pivot, plotname = plot_name
qpie(categ_pivot, plotname = FixPlotName(make.names(plot_name))
, both_pc_and_value = both_pc_and_value
, LegendSide = F, labels = NULL, LegendTitle = '', ...)
}
Expand Down
5 changes: 3 additions & 2 deletions R/Seurat.Utils.R
Original file line number Diff line number Diff line change
Expand Up @@ -3,6 +3,7 @@
# ____________________________________________________________________
# devtools::load_all(path = '~/GitHub/Packages/Seurat.utils');
# source("~/GitHub/Packages/Seurat.utils/R/Seurat.Utils.R")
# source("~/GitHub/Packages/Seurat.utils/R/Seurat.Utils.Metadata.R")

# _________________________________________________________________________________________________
# Cluster.Auto-naming.DE.R
Expand All @@ -12,7 +13,7 @@

# _________________________________________________________________________________________________
# require(princurve) # only for AutoNumber.by.PrinCurve
backup


# _________________________________________________________________________________________________
# General ______________________________ ----
Expand Down Expand Up @@ -543,7 +544,7 @@ Percent.in.Trome <- function(obj = combined.obj, n.genes.barplot = 25
#' @export
gene.expression.level.plots <- function(gene = 'TOP2A', obj = ls.Seurat[[1]]
, slot = c('counts', 'data')[2]
, w = 7, h = 4
, w = 9, h = 4
, ... ) {
print(gene)
if (gene %in% rownames(obj)) {
Expand Down
8 changes: 7 additions & 1 deletion man/LoadAllSeurats.Rd

Some generated files are not rendered by default. Learn more about how customized files appear on GitHub.

2 changes: 1 addition & 1 deletion man/drop.levels.Seurat.Rd

Some generated files are not rendered by default. Learn more about how customized files appear on GitHub.

2 changes: 2 additions & 0 deletions man/gene.expression.level.plots.Rd

Some generated files are not rendered by default. Learn more about how customized files appear on GitHub.

2 changes: 1 addition & 1 deletion man/isave.RDS.Rd

Some generated files are not rendered by default. Learn more about how customized files appear on GitHub.

2 changes: 0 additions & 2 deletions man/multiFeaturePlot.A4.Rd

Some generated files are not rendered by default. Learn more about how customized files appear on GitHub.

0 comments on commit 7112351

Please sign in to comment.