Third-party data and software

This repository contains no raw sequencing data, tutor-provided HTML reports, reference genome files, software binaries, package archives, or downloaded motif databases.

The analysis used public sequencing accessions associated with Calderon et al. (2019), DOI 10.1038/s41588-019-0505-9. Data users must follow the terms of the original archive and publication.

The workflow refers to FastQC, Cutadapt, Bowtie2, SAMtools, Picard, bedtools, MACS3, featureCounts, R, DESeq2, apeglm, GENCODE, g:Profiler, HOMER, and IGV. Those projects retain their own copyrights, licenses, citation requirements, and database terms. Mentioning them here does not redistribute or relicense their software or reference resources.