Artist                  Visualization Artist for Custom Plots
CHOL_DEGs               Example DEGs data from Limma-Voom workflow for
                        TCGA-CHOL project
available_ele           Extract Unique Elements from a Column with
                        Optional Filtering
available_tissue_class
                        Retrieve Available Tissue Classes for a Given
                        Species
available_tissue_type   Retrieve Available Tissue Types for a Given
                        Species
check_marker            Verify and Explore Cell Type Annotations
dgeList                 Construct a DGEList Object
dprocess_dgeList        Filter Low-Expressed Genes and Normalize
                        DGEList Data
finsert                 Create a Vector from an Index-to-Label Map
get_attr                Retrieve Attributes from an R Object
get_marker              Retrieve Markers for Specific Cells from
                        cellMarker2
groupStat               Perform Summary Analysis by Group Using Regular
                        Expressions
groupStatI              Perform Summary Analysis by Group Using an
                        column Index
limmaFit                Fit a Linear Model for RNA-seq data using limma
list2dt                 Convert a List with Vector Values to a Long
                        Data.table
list2graph              Convert a Named List into a Graph Based on
                        Overlap
matchCellMarker2        Annotate Clusters by Matching Markers with the
                        CellMarker2.0 Database
pbmc.markers            Example marker data from
                        Seurat::FindAllMarkers()
plotEnrichment2         Plot Enrichment for a Specific Pathway in fgsea
plotGSEA                Visualization of GSEA Result from
                        'fgsea::fgsea()'
plotMarkerDistribution
                        Plot Distribution of a Marker Across Tissues
                        and Cell Types
plotORA                 Visualization of ORA Test Results
plotPossibleCell        Plot Possible Cell Distribution Based on
                        matchCellMarker2() Results
plotRank                Visualization of GSEA Rank Statistics
plotSeuratDot           Create a Dot Plot to Visualize Marker Gene
                        Expression
plotVolcano             Plot Volcano Plot for Differentially Expressed
                        Genes
prepare_geo             Download and Process GEO Data
prepare_tcga            Prepare TCGA Data for Analysis
setSavedir              Set a Directory for Saving Files
setcolnames             Rename Column Names of a Data Frame or Matrix
setrownames             Rename Row Names of a Data Frame or Matrix
split_matrix            Split a Matrix into Smaller Sub-matrices by
                        Column or Row
suggest_best_match      Suggest Best Matches for a String from a Vector
                        of Choices
theme_publication       Custom ggplot2 Theme for Academic Publications
tuneParameters          Optimize Resolution and Gene Number Parameters
                        for Cell Type Annotation
uniprot_id_map          Map UniProt IDs to Other Identifiers
workIn                  Perform Operations in a Specified Directory and
                        Return to the Original Directory
