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Plot heatmap of mapping controls to treated for single-agent and combo data to control quality of the data

Source: R/plot-fitting_qc.R
heatmap_control_mapping_qc.Rd

Plot heatmap of mapping controls to treated for single-agent and combo data to control quality of the data

Usage

heatmap_control_mapping_qc(dt_treat, dt_controls)

Arguments

dt_treat

data.table representation of the data in RawTreated assay, outputted by gDRutils::convert_se_assay_to_dt(se, "RawTreated") and SummarizedExperiment with chosen data type: single-agent or combo

dt_controls

data.table representation of the data in Controls assay, outputted by gDRutils::convert_se_assay_to_dt(se, "Controls") and SummarizedExperiment with chosen data type: single-agent or combo

Value

pheatmap object containing hetamap of mapping controls to treated

Author

Bartosz Czech czech.bartosz@external.gene.com

Examples

mae <- gDRutils::get_synthetic_data("small")
se <- mae[[gDRutils::get_supported_experiments("sa")]]

dt_treat <- gDRutils::convert_se_assay_to_dt(se, "RawTreated")
dt_controls <- gDRutils::convert_se_assay_to_dt(se, "Controls")

heatmap_control_mapping_qc(dt_treat = dt_treat,
                           dt_controls = dt_controls)


heatmap_control_mapping_qc(dt_treat = dt_treat[1:1350, ],
                           dt_controls = dt_controls)


dt_treat_NA <- dt_treat[-c(1:135, 270:405),]
heatmap_control_mapping_qc(dt_treat = dt_treat_NA,
                           dt_controls = dt_controls)


dt_controls_NA <- dt_controls[-c(1:305, 611:763, 1221:1750),]
heatmap_control_mapping_qc(dt_treat = dt_treat,
                           dt_controls = dt_controls_NA)


heatmap_control_mapping_qc(dt_treat = dt_treat,
                           dt_controls = dt_controls[1:3660, ])