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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(batch_de)
export(batch_pca)
export(batch_volcano)
export(create_dummy_txi)
export(deseq2_analysis)
export(filter_txi)
export(format_counts)
export(format_de_odysse)
export(format_de_results)
export(get_anno_df)
export(get_demo_abundance_files)
export(get_demo_anno_file)
export(get_demo_de_infos_file)
export(get_demo_de_res)
export(get_demo_design)
export(get_demo_kallisto_dir)
export(get_demo_metadata_file)
export(get_demo_pca_infos_file)
export(get_demo_txi)
export(get_demo_volcano_infos_file)
export(get_filenames)
export(get_human_hsk)
export(get_raw_count_anno_df)
export(get_ruvg_anno_df)
export(get_tpm_anno_df)
export(gprofiler2_analysis)
export(gprofiler2_convert)
export(import_kallisto)
export(plot_pca)
export(produce_RUVSeq_graphs)
export(produce_deliverables)
export(produce_pca)
export(produce_pca_df)
export(produce_report)
export(produce_volcano)
export(ruvg_normalization)
export(split_de_results)
export(validate_txi)
export(wrapper_report_LO)
importFrom(DESeq2,DESeq)
importFrom(DESeq2,DESeqDataSetFromMatrix)
importFrom(DESeq2,DESeqDataSetFromTximport)
importFrom(DESeq2,counts)
importFrom(DESeq2,results)
importFrom(EDASeq,betweenLaneNormalization)
importFrom(EDASeq,newSeqExpressionSet)
importFrom(EDASeq,normCounts)
importFrom(EDASeq,plotPCA)
importFrom(EDASeq,plotRLE)
importFrom(FactoMineR,PCA)
importFrom(R.utils,getRelativePath)
importFrom(RUVSeq,RUVg)
importFrom(SummarizedExperiment,colData)
importFrom(checkmate,assert_character)
importFrom(checkmate,assert_logical)
importFrom(checkmate,checkPathForOutput)
importFrom(clusterProfiler,dotplot)
importFrom(clusterProfiler,merge_result)
importFrom(dplyr,arrange)
importFrom(dplyr,case_when)
importFrom(dplyr,everything)
importFrom(dplyr,filter)
importFrom(dplyr,full_join)
importFrom(dplyr,group_by)
importFrom(dplyr,if_else)
importFrom(dplyr,last_col)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,one_of)
importFrom(dplyr,pull)
importFrom(dplyr,relocate)
importFrom(dplyr,select)
importFrom(dplyr,summarize)
importFrom(ggplot2,aes)
importFrom(ggplot2,aes_string)
importFrom(ggplot2,annotate)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggtitle)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_colour_identity)
importFrom(ggplot2,scale_shape_manual)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_minimal)
importFrom(ggplot2,ylab)
importFrom(ggrepel,geom_text_repel)
importFrom(gprofiler2,gost)
importFrom(magrittr,"%>%")
importFrom(multienrichjam,enrichDF2enrichResult)
importFrom(parallel,mclapply)
importFrom(purrr,imap_dfr)
importFrom(purrr,map)
importFrom(purrr,walk)
importFrom(readr,read_csv)
importFrom(readr,write_csv)
importFrom(rmarkdown,render)
importFrom(stringr,str_detect)
importFrom(stringr,str_extract)
importFrom(stringr,str_replace)
importFrom(tibble,column_to_rownames)
importFrom(tibble,rownames_to_column)
importFrom(tidyr,gather)
importFrom(tidyr,spread)
importFrom(tidyr,tibble)
importFrom(tools,file_path_sans_ext)
importFrom(tximport,summarizeToGene)
importFrom(tximport,tximport)
importFrom(utils,head)
importFrom(utils,tail)