API for neurogenomics/PeakyFinders
Mining, Calling, and Importing Epigenomic Peaks in R
| Global functions | |
|---|---|
| add_mcol | Source code |
| annot_macs | Source code |
| bam_to | Man page Source code |
| bed_to | Man page Source code |
| bigwig_to_bedgraph | Source code |
| call_peaks | Man page Source code |
| call_peaks_macsr | Man page Source code |
| call_peaks_seacr | Man page Source code |
| categorise_links | Source code |
| check_groups | Source code |
| clean_granges | Man page Source code |
| condense_granges | Man page Source code |
| construct_searches | Man page Source code |
| create_trackhub | Man page Source code |
| create_trackhub_description | Source code |
| create_trackhub_genomes | Source code |
| create_trackhub_hub | Source code |
| create_trackhub_trackdb | Source code |
| download_bedgraph | Source code |
| drop_empty_cols | Source code |
| dropna_granges | Source code |
| dt_to_granges | Man page Source code |
| example_bam | Man page Source code |
| example_bg_bw | Man page Source code |
| filter_by_args | Source code |
| filter_chrom | Man page Source code |
| filter_genome | Source code |
| find_executable_seacr | Man page Source code |
| find_links | Man page Source code |
| fix_seqinfo | Man page Source code |
| get_encode_peaks_metadata | Man page Source code |
| get_genome | Man page Source code |
| get_geo_links | Man page Source code |
| get_geo_supplementary_files | Man page Source code |
| get_links_annotationhub | Source code |
| get_links_encode | Source code |
| get_links_roadmap | Source code |
| import_bedgraph_chroms | Man page Source code |
| import_bigwig_filtered | Man page Source code |
| import_peaks | Man page Source code |
| import_peaks_annotationhub | Man page Source code |
| import_peaks_bedgraph | Source code |
| import_peaks_bigbed | Source code |
| import_peaks_bigwig | Source code |
| import_peaks_broadpeak | Source code |
| import_peaks_encode | Man page Source code |
| import_peaks_files | Man page Source code |
| import_peaks_genericpeak | Source code |
| import_peaks_geo | Man page Source code |
| import_peaks_macs | Source code |
| import_peaks_multi | Man page Source code |
| import_peaks_narrowpeak | Source code |
| import_peaks_roadmap | Man page Source code |
| import_peaks_seacr | Source code |
| is_bedgraph | Source code |
| is_bigwig | Source code |
| is_granges | Man page Source code |
| is_local | Man page Source code |
| is_macs | Source code |
| is_url | Man page Source code |
| liftover_grlist | Man page Source code |
| list_to_char | Source code |
| make_conda_env | Man page Source code |
| merge_bam | Man page Source code |
| message_parallel | Man page Source code |
| messager | Man page Source code |
| parse_build | Source code |
| peaks_metadata_annotationhub | Man page |
| peaks_metadata_encode | Man page Source code |
| peaks_metadata_roadmap | Man page |
| pooled_peaks | Man page Source code |
| pooled_peaks_macsr | Man page Source code |
| pooled_peaks_seacr | Man page Source code |
| process_ids | Source code |
| report_time | Man page Source code |
| rtracklayer_bigwig_error | Source code |
| seacr_tmp_files | Source code |
| search_annotationhub | Man page Source code |
| search_encode | Man page Source code |
| search_roadmap | Man page Source code |
| split_chromosomes_run | Source code |
| stopper | Man page Source code |
| subset_peaks | Source code |
| top_dir | Source code |
| translate_genome | Man page Source code |
| unlist_dt | Man page Source code |
| unnest_wider_dt | Man page Source code |
