Class representing an expression dataset at gene-level

Extension of expression dataset at gene-level.

Super class

nexodiff::ExprData -> ExprDataGene

Methods

Public methods

• ExprDataGene$new()

• ExprDataGene$clone()

Inherited methods

• nexodiff::ExprData$clean_id_versions()
• nexodiff::ExprData$compute_and_set_inter_norm_fact()
• nexodiff::ExprData$compute_and_set_intra_norm_fact()
• nexodiff::ExprData$compute_norm()
• nexodiff::ExprData$compute_norm_fact()
• nexodiff::ExprData$extract_pairwise_data_with_design()
• nexodiff::ExprData$filter_and_get_len()
• nexodiff::ExprData$filter_and_get_raw()
• nexodiff::ExprData$filter_and_set_selected_ids()
• nexodiff::ExprData$get_annotation()
• nexodiff::ExprData$get_design()
• nexodiff::ExprData$get_inter_norm_fact()
• nexodiff::ExprData$get_inter_norm_fact_opts()
• nexodiff::ExprData$get_intra_norm_fact()
• nexodiff::ExprData$get_intra_norm_fact_method()
• nexodiff::ExprData$get_len()
• nexodiff::ExprData$get_main_etag()
• nexodiff::ExprData$get_raw()
• nexodiff::ExprData$is_at_gene_level()
• nexodiff::ExprData$is_with_fixed_length()
• nexodiff::ExprData$plot_corr()
• nexodiff::ExprData$plot_dist_per_sample()
• nexodiff::ExprData$plot_etags_summary()
• nexodiff::ExprData$plot_hclust()
• nexodiff::ExprData$plot_prcomp()
• nexodiff::ExprData$reset()
• nexodiff::ExprData$show_etags_summary()

---

Method new()

Initialize ExprDataGene object.

The ExprDataGene object is initiated from a ExprDatatranscript object

Raw count are summarized per genes.

Lengths are computed using a weighted mean. Weights are raw count divided by length

Usage

ExprDataGene$new(expr_data_transcript)

Arguments

expr_data_transcript

Expression data at transcript level. (ExprDataTranscript object)

Returns

A new ExprDataGene object.

---

Method clone()

The objects of this class are cloneable with this method.

Usage

ExprDataGene$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.