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Copy pathNAMESPACE
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93 lines (92 loc) · 2.64 KB
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# Generated by roxygen2: do not edit by hand
S3method("[",mpaqt_counts)
S3method("[",mpaqt_index)
S3method(abundances,mpaqt_quant_result)
S3method(coef,mpaqt_quant_result)
S3method(fitted,mpaqt_quant_result)
S3method(length,mpaqt_counts)
S3method(length,mpaqt_index)
S3method(print,mpaqt_counts_lr)
S3method(print,mpaqt_counts_sr)
S3method(print,mpaqt_index)
S3method(print,mpaqt_prequant)
S3method(print,mpaqt_quant_result)
S3method(summary,mpaqt_counts_lr)
S3method(summary,mpaqt_counts_sr)
S3method(summary,mpaqt_index)
S3method(summary,mpaqt_quant_result)
S3method(tpm,mpaqt_quant_result)
S3method(uncertainty,mpaqt_quant_result)
export(abundances)
export(combine_quant_results)
export(export_combined_results)
export(export_results_csv)
export(gene_abundances)
export(get_input_metadata)
export(get_parameters)
export(has_uncertainty)
export(mpaqt_index)
export(mpaqt_postquant)
export(mpaqt_prepare_long_reads)
export(mpaqt_prepare_long_reads_sc)
export(mpaqt_prepare_long_reads_sc_flnc)
export(mpaqt_prepare_short_reads)
export(mpaqt_prepare_short_reads_sc)
export(mpaqt_prequant)
export(mpaqt_process_long_reads)
export(mpaqt_process_long_reads_sc)
export(mpaqt_process_short_reads)
export(mpaqt_process_short_reads_sc)
export(mpaqt_quant)
export(mpaqt_quant_bulk)
export(mpaqt_quant_sc)
export(mpaqt_read_counts)
export(mpaqt_read_index)
export(mpaqt_read_long_read_counts)
export(mpaqt_read_prequant)
export(mpaqt_read_result)
export(mpaqt_read_short_read_counts)
export(mpaqt_save_prequant)
export(mpaqt_save_result)
export(mpaqt_save_result_sc)
export(require_long_read_processing)
export(require_sc_long_read_flnc)
export(require_transcriptome_extraction)
export(tpm)
export(uncertainty)
importFrom(Matrix,colSums)
importFrom(Matrix,crossprod)
importFrom(Matrix,rowSums)
importFrom(Matrix,sparseMatrix)
importFrom(Matrix,t)
importFrom(data.table,.N)
importFrom(data.table,.SD)
importFrom(data.table,`:=`)
importFrom(data.table,as.data.table)
importFrom(data.table,data.table)
importFrom(data.table,dcast)
importFrom(data.table,fread)
importFrom(data.table,fwrite)
importFrom(data.table,melt)
importFrom(data.table,rbindlist)
importFrom(data.table,setDT)
importFrom(data.table,setcolorder)
importFrom(data.table,setnames)
importFrom(methods,as)
importFrom(rlang,`%||%`)
importFrom(stats,aggregate)
importFrom(stats,coefficients)
importFrom(stats,cor)
importFrom(stats,fitted)
importFrom(stats,glm)
importFrom(stats,logLik)
importFrom(stats,median)
importFrom(stats,model.matrix)
importFrom(stats,optim)
importFrom(stats,optimize)
importFrom(stats,poisson)
importFrom(stats,predict)
importFrom(stats,quantile)
importFrom(stats,setNames)
importFrom(utils,flush.console)
importFrom(utils,head)