Artist                  Visualization Artist for Custom Plots
CHOL_DEGs               Example DEGs data from Limma-Voom workflow for
                        TCGA-CHOL project
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 Markers for Specific Clusters Using
                        matchCellMarker
dgeList                 Construct a DGEList Object
dprocess_dgeList        Filter Low-Expressed Genes and Normalize
                        DGEList Data
finsert                 Insert Specific Values into a Character Vector
                        at Defined Positions
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        Match Markers with cellMarker2 Dataset
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 Dot Plots for Markers from check_marker
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
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
