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Finalise gating #38

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merged 10 commits into from
Jul 13, 2024
Merged

Finalise gating #38

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7e8d3b6
Update interactive gating to match tidygate
william-hutchison Jun 24, 2024
ccb38d9
Add unit test
william-hutchison Jun 24, 2024
1768ef8
Unify interactive and programmatic gate functions
william-hutchison Jul 11, 2024
b4d0f02
Add citation
william-hutchison Jul 11, 2024
b5a23a2
Fix R CMD check notes
william-hutchison Jul 11, 2024
e01203e
Add ability to hide points during interactive gating
william-hutchison Jul 12, 2024
9c885f4
Fix behaviour when no gates are drawn
william-hutchison Jul 12, 2024
8ccce0b
Remove tidygate remote
william-hutchison Jul 12, 2024
cf611ba
Fix R CMD check notes
william-hutchison Jul 12, 2024
4f1f89a
Version up
william-hutchison Jul 12, 2024
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13 changes: 3 additions & 10 deletions DESCRIPTION
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
Type: Package
Package: tidySpatialExperiment
Title: SpatialExperiment with tidy principles
Version: 1.1.3
Version: 1.1.4
Authors@R: c(
person("William", "Hutchison", email = "[email protected]", role = c("aut", "cre"),
comment = c(ORCID = "0009-0001-6242-4269")),
Expand Down Expand Up @@ -41,32 +41,25 @@ Imports:
fansi,
lifecycle,
magick,
tidygate (>= 0.5.4),
tidygate (>= 1.0.13),
shiny
Suggests:
BiocStyle,
testthat,
knitr,
markdown,
SingleCellSignalR,
SingleR,
scater,
scran,
igraph,
GGally,
celldex,
dittoSeq,
cowplot,
DropletUtils,
tidySummarizedExperiment
VignetteBuilder:
knitr
Remotes:
william-hutchison/tidygate@0c6f618fd6390b28d4a7d5b5a6177727083ed9c2
Biarch: true
biocViews: Infrastructure, RNASeq, GeneExpression, Sequencing, Spatial, Transcriptomics, SingleCell
Encoding: UTF-8
RoxygenNote: 7.3.1
Roxygen: list(markdown = TRUE)
URL: https://github.com/william-hutchison/tidySpatialExperiment, https://william-hutchison.github.io/tidySpatialExperiment/
BugReports: https://github.com/william-hutchison/tidySpatialExperiment/issues
LazyData: true
6 changes: 3 additions & 3 deletions NAMESPACE
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Expand Up @@ -22,8 +22,7 @@ S3method(unite,SpatialExperiment)
S3method(unnest,tidySpatialExperiment_nested)
export(aggregate_cells)
export(ellipse)
export(gate_interactive)
export(gate_programmatic)
export(gate)
export(rectangle)
export(unnest_single_cell_experiment)
import(tidySingleCellExperiment)
Expand Down Expand Up @@ -62,6 +61,7 @@ importFrom(ggplot2,aes)
importFrom(ggplot2,coord_cartesian)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,labs)
importFrom(magick,image_info)
importFrom(magick,image_read)
importFrom(methods,callNextMethod)
Expand Down Expand Up @@ -102,7 +102,7 @@ importFrom(tibble,as_tibble)
importFrom(tibble,enframe)
importFrom(tibble,rowid_to_column)
importFrom(tibble,tibble)
importFrom(tidygate,gate_programmatic)
importFrom(tidygate,gate)
importFrom(tidygate,server)
importFrom(tidygate,ui)
importFrom(tidyr,extract)
Expand Down
9 changes: 9 additions & 0 deletions R/data.R
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@@ -0,0 +1,9 @@
#' Demo brush data
#'
#' @keywords data
"demo_brush_data"

#' Demo select data
#'
#' @keywords data
"demo_select_data"
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