Tools for managing SingleCellExperiment objects as projects

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Documentation for package ‘chevreulShiny’ version 1.0.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

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