Changes in version 0.99.0                        

  - Initial Bioconductor submission.
  - pscan() implements the Pscan method (Zambelli, Pesole and
    Pavesi, 2009, doi:10.1093/nar/gkp464): it tests a set of promoter
    sequences for transcription factor binding motifs that score higher
    than in a background of all promoters of the organism, and reports
    z-scores, p-values and FDR.
  - Precomputed backgrounds for the JASPAR 2020, 2022 and 2024 CORE
    collections, seven genome assemblies and five promoter windows are
    retrieved from ExperimentHub (package PscanRBackgrounds), or
    directly from their Zenodo records, with ps_retrieve_bg() and listed
    with ps_available_bg().
  - Custom backgrounds can be built with ps_build_bg() and saved and
    reloaded with ps_write_bg_to_file() and ps_retrieve_bg_from_file().
    Full backgrounds keep per-promoter hits, so that pscan_full_bg() can
    test a set of transcripts without rescanning sequences.
  - pscan_filtered() restricts an analysis to motifs that pass a first
    scan.
  - ps_select_promoters() and ps_selection_summary() choose one promoter
    per gene from a gene list.
  - Results are summarised with ps_results_table() and visualised with
    ps_zscore_heatmap(), ps_motif_barplot(), ps_density_plot(),
    ps_hitpos_map() and ps_hit_score_plot().
  - Motif scanning can run in parallel through BiocParallel; it is
    serial by default.