Workflow
--------------------

To cite the workflow, please reference the following DOI:

.. image:: https://zenodo.org/badge/DOI/10.5281/zenodo.10964074.svg
  :target: https://doi.org/10.5281/zenodo.10964074


Software used in workflow
-------------------------------------

Please also cite the software used in this workflow:

+-------------------+------------------------------------------------------------+
| Tool              | Citation                                                   | 
+===================+============================================================+
| Fastqc            | https://www.bioinformatics.babraham.ac.uk/projects/fastqc/ | 
+-------------------+------------------------------------------------------------+
| MultiQC           | 10.1093/bioinformatics/btw354                              |
+-------------------+------------------------------------------------------------+
| samtools          | 10.1093/bioinformatics/btp352                              |
+-------------------+------------------------------------------------------------+
| Trim Galore       | 10.5281/zenodo.7598955                                     |
+-------------------+------------------------------------------------------------+
| Bowtie2           | 10.1038/nmeth.1923                                         |
+-------------------+------------------------------------------------------------+
| deeptools         | 10.1093/nar/gkw257                                         |
+-------------------+------------------------------------------------------------+
| damidseq_pipeline | 10.1093/bioinformatics/btv386                              |
+-------------------+------------------------------------------------------------+
| bedtools          | 10.1093/bioinformatics/btq033                              |
+-------------------+------------------------------------------------------------+
| MACS2             | 10.1186/gb-2008-9-9-r137                                   |
+-------------------+------------------------------------------------------------+
| Biopython         | 10.1093/bioinformatics/btp163                              |
+-------------------+------------------------------------------------------------+