Gallery of mascarade-generaded masks
Loading necessary libraries
##
## Attaching package: 'data.table'## The following object is masked from 'package:base':
##
## %notin%PBMC-3K UMAP
example <- readRDS(url("https://alserglab.wustl.edu/files/mascarade/examples/pbmc3k_umap.rds"))
data <- data.table(example$dims,
cluster=example$clusters)
maskTable <- generateMask(dims=example$dims,
clusters=example$clusters)
ggplot(data, aes(x=UMAP_1, y=UMAP_2)) +
geom_point(aes(color=cluster)) +
geom_path(data=maskTable, aes(group=group)) +
coord_fixed() +
theme_classic()
PBMC-3K t-SNE
example <- readRDS(url("https://alserglab.wustl.edu/files/mascarade/examples/pbmc3k_tsne.rds"))
data <- data.table(example$dims,
cluster=example$clusters)
maskTable <- generateMask(dims=example$dims,
clusters=example$clusters)
ggplot(data, aes(x=tSNE_1, y=tSNE_2)) +
geom_point(aes(color=cluster)) +
geom_path(data=maskTable, aes(group=group)) +
coord_fixed() +
theme_classic()
Aya
example <- readRDS(url("https://alserglab.wustl.edu/files/mascarade/examples/aya.rds"))
data <- data.table(example$dims,
cluster=example$clusters)
maskTable <- generateMask(dims=example$dims,
clusters=example$clusters)
ggplot(data, aes(x=UMAP_1, y=UMAP_2)) +
geom_point(aes(color=cluster), size=0.5) +
geom_path(data=maskTable, aes(group=group)) +
coord_fixed() +
theme_classic()
Chia-Jung
example <- readRDS(url("https://alserglab.wustl.edu/files/mascarade/examples/chiajung1.rds"))
data <- data.table(example$dims,
cluster=example$clusters)
maskTable <- generateMask(dims=example$dims,
clusters=example$clusters)
ggplot(data, aes(x=UMAP_1, y=UMAP_2)) +
geom_point(aes(color=cluster), size=0.1) +
scale_color_ucscgb() +
geom_path(data=maskTable, aes(group=group)) +
coord_fixed() +
theme_classic()
example <- readRDS(url("https://alserglab.wustl.edu/files/mascarade/examples/chiajung2.rds"))
data <- data.table(example$dims,
cluster=example$clusters)
maskTable <- generateMask(dims=example$dims,
clusters=example$clusters)
ggplot(data, aes(x=UMAP_1, y=UMAP_2)) +
geom_point(aes(color=cluster)) +
geom_path(data=maskTable, aes(group=group)) +
coord_fixed() +
theme_classic()
Session info
## R version 4.6.0 (2026-04-24)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 24.04.4 LTS
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
## LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.26.so; LAPACK version 3.12.0
##
## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
## [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
##
## time zone: Etc/UTC
## tzcode source: system (glibc)
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] ggsci_5.0.0 ggplot2_4.0.3 data.table_1.18.4
## [4] mascarade_0.3.4.9000 rmarkdown_2.31
##
## loaded via a namespace (and not attached):
## [1] sass_0.4.10 generics_0.1.4 spatstat.explore_3.8-1
## [4] tensor_1.5.1 spatstat.data_3.1-9 lattice_0.22-9
## [7] digest_0.6.39 magrittr_2.0.5 spatstat.utils_3.2-3
## [10] evaluate_1.0.5 grid_4.6.0 RColorBrewer_1.1-3
## [13] fastmap_1.2.0 jsonlite_2.0.0 Matrix_1.7-5
## [16] spatstat.sparse_3.2-0 scales_1.4.0 tweenr_2.0.3
## [19] jquerylib_0.1.4 abind_1.4-8 cli_3.6.6
## [22] rlang_1.2.0 polyclip_1.10-7 withr_3.0.3
## [25] cachem_1.1.0 yaml_2.3.12 otel_0.2.0
## [28] spatstat.univar_3.2-0 tools_4.6.0 deldir_2.0-4
## [31] dplyr_1.2.1 spatstat.geom_3.8-1 buildtools_1.0.0
## [34] vctrs_0.7.3 R6_2.6.1 lifecycle_1.0.5
## [37] MASS_7.3-65 pkgconfig_2.0.3 pillar_1.11.1
## [40] bslib_0.11.0 gtable_0.3.6 glue_1.8.1
## [43] ggforce_0.5.0 xfun_0.59 tibble_3.3.1
## [46] tidyselect_1.2.1 sys_3.4.3 knitr_1.51
## [49] goftest_1.2-3 farver_2.1.2 nlme_3.1-169
## [52] spatstat.random_3.5-0 htmltools_0.5.9 labeling_0.4.3
## [55] maketools_1.3.2 compiler_4.6.0 S7_0.2.2