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#' @importFrom assertive assert_all_are_dirs
#' @importFrom assertive assert_all_are_existing_files
#' @importFrom assertive assert_all_are_false
#' @importFrom assertive assert_all_are_less_than
#' @importFrom assertive assert_all_are_matching_regex assert_all_are_true
#' @importFrom assertive assert_are_identical assert_are_same_length
#' @importFrom assertive has_names assert_has_names
#' @importFrom assertive is_identical_to_true is_scalar is_windows
#' @importFrom assertive assert_is_subset assert_has_no_duplicates
#' @importFrom assertive assert_is_all_of assert_is_any_of
#' @importFrom assertive assert_is_a_bool assert_is_a_number
#' @importFrom assertive assert_is_a_string assert_is_character
#' @importFrom assertive assert_is_non_scalar
#' @importFrom assertive assert_is_numeric assert_is_scalar
#' @importFrom Biostrings complement DNAStringSet
#' @importFrom Biostrings vmatchPattern vcountPDict
#' @importFrom Biostrings writeXStringSet
#' @importFrom BiocGenerics end end<- invertStrand
#' @importFrom BiocGenerics start start<- strand strand<-
#' @importFrom BSgenome getSeq getBSgenome
#' @importFrom data.table fread fwrite
#' @importFrom data.table := data.table as.data.table setnames
#' @importFrom data.table setnames setorderv setnafill .SD
#' @importFrom GenomeInfoDb genome
#' @importFrom GenomeInfoDb seqinfo seqinfo<-
#' @importFrom GenomeInfoDb seqlevels seqlevels<- seqlevelsInUse
#' @importFrom GenomeInfoDb seqlevelsStyle seqlevelsStyle<-
#' @importFrom GenomeInfoDb seqnames seqnames<-
#' @importFrom GenomeInfoDb sortSeqlevels standardChromosomes
#' @importFrom GenomicRanges granges GRanges mcols mcols<-
#' @importFrom ggplot2 aes aes_string
#' @importFrom ggplot2 facet_wrap geom_point geom_segment
#' @importFrom ggplot2 ggplot ggtitle scale_x_continuous
#' @importFrom ggplot2 scale_alpha_manual scale_size_manual
#' @importFrom ggplot2 scale_linetype_manual scale_color_manual
#' @importFrom ggplot2 theme_bw unit xlab ylab
#' @importFrom grid arrow
#' @importFrom magrittr %>% %<>% add and
#' @importFrom magrittr extract extract2 set_names
#' @importFrom methods as is
#' @importFrom tidyr separate_rows
#' @importFrom utils download.file getFromNamespace head
#' @importFrom utils tail read.csv read.table
#' @importFrom reticulate py_module_available
#' @importFrom stats complete.cases
#' @importFrom stringi stri_detect_regex stri_locate_all_fixed
#' @importFrom stringi stri_locate_all_regex
#' @importFrom stringi stri_replace_first_fixed
#' @importFrom stringi stri_startswith_fixed
#' @importFrom tidyselect starts_with
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