# Tools for managing SingleCellExperiment objects as projects

## Documentation for package ‘chevreulShiny’ version 1.4.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

append_to_project_db | Update a database of chevreulShiny projects
cc.genes.cyclone | Cyclone cell cycle pairs by symbol
chevreulApp | Create a shiny app for a project on disk
create_project_db | Create a database of chevreulShiny projects
create_proj_matrix | Create a Table of single Cell Projects
ensembl_version | Ensembl version used for build
get_transcripts_from_sce | Get Transcripts in object
grch38 | Human annotation data
grch38_tx2gene | Human transcripts to genes
human_to_mouse_homologs | Gene Homologs Between Human and Mouse
list_plot_types | Collate list of variables to be plotted
load_alabaster_from_proj | Load SingleCellExperiment Files from a single project path
load_alabaster_path | Read in Gene and Transcript SingleCellExperiment Objects
load_bigwigs | Load Bigwigs
make_bigwig_db | Make Bigwig Database
make_chevreul_clean_names | Clean Vector of chevreulShiny Names
metadata_from_batch | Retrieve Metadata from Batch
minimalChevreulApp | Create a minimal chevreulShiny app using SingleCellExperiment input
plotly_settings | Plotly settings
plot_gene_coverage_by_var | Plot BigWig Coverage for Genes of Interest by a Given Variable
read_project_db | Read a database of chevreulShiny projects
save_sce | Save object to /output/sce/_sce.rds
small_example_dataset | Small example SingleCellExperiment
subset_by_colData | Subset by new colData
tiny_sce | Tiny example SingleCellExperiment
unite_metadata | Unite metadata
update_project_db | Update a database of chevreulShiny projects