Package index

Funciones / Functions

download_data()

Download the large data objects of the package

create_heatmap()

Create a ComplexHeatmap with row annotation

get_heatmap_mat()

Generate a heatmap-ready matrix from a DESeq2 object

process_go()

Process GO Enrichment Result from a Single File

reduce_go_terms()

Batch Reduce and Visualize GO Terms Across Multiple Datasets

Datos de las participantes / Participant data

metadata_cleaned

Sample metadata: group, cell type and clinical information

volunteer_info

Clinical information per volunteer

Datos de expresión / Expression data

filtered_txi

Gene-level RNA-seq quantification (tximport)

biotype_summary

Gene biotypes

dds

DESeqDataSet checkpoint from the RNA-seq lesson

zscore_mat

Z-score matrix checkpoint from the RNA-seq lesson

Resultados de las lecciones / Lesson results

de_results

Differential expression results checkpoint (SLE vs Ctrl by cell type)

go_results

Functional enrichment results checkpoint (g:Profiler)

de_celltype_results

Differential expression results: dendritic cells vs monocytes

go_celltype_results

Functional enrichment checkpoint: dendritic cells vs monocytes (g:Profiler)

de_interaction_results

Differential expression results: between-group comparison of contrasts

go_interaction_results

Functional enrichment checkpoint: between-group comparison of contrasts (g:Profiler)

Listas de genes / Gene lists

sle_genes

Genes associated with systemic lupus erythematosus (SLE)

isg_genes

Interferon-stimulated genes (ISGs)

dc_genes

Genes associated with dendritic cell differentiation and function

moDC_genes

Genes described in the differentiation of monocytes into moDCs

tolDC_genes

Transcriptional signature of tolerogenic dendritic cells (tolDCs)

Funciones obsoletas / Deprecated functions

processGO() Reduce_GOTerm()

Deprecated functions in GeneExprLupusMx