Index

TODO: short explanations + links to example on the website

• ABC/500K_peaks_BENGI_GM12878.ipynb
• ABC/ABC_generic.ipynb
• ABC/500K_peaks_BENGI_GM12878.ipynb
• ABC/ABC_over_K562.ipynb
• ABC/april_K562_56_genes.ipynb
• ABC/april_K562_59_genes.ipynb
• ABC/april_K562_candidates_NOT_in_whitelist.ipynb
• ABC/BENGI_GM12878_from_ccRE_ELSs.ipynb
• ABC/BENGI_GM12878.ipynb
• BENGI/BENGI_to_bedpe.ipynb - Convert BENGI output to BEDPE format
• BENGI/BENGI_to_bedpe_all_GENCODE_TSS.ipynb - Convert BENGI output to BEDPE format, using all GENCODE TSS