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ATACgraph

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ATACgraph
Container: ATACgraph Docker
Scope: Domain Specific
Summary: ATAC-seq for biologists with minimal bioinformatics knowledge to analyze chromatin accessibility

Comments

  • ATACgraph profiles accessible chromatin regions and provides ATAC-seq-specific information including definitions of nucleosome-free regions (NFRs) and nucleosome-occupied regions. ATACgraph also allows identification of differentially accessible regions between two ATAC-seq datasets.

User Support

  • [Installation instructions](https://hub.docker.com/r/lsbnb/galaxy_atacgraph)
  • Predefined workflows
  • [Issue reporting](https://github.com/RitataLU/ATACgraph/issues)

Quotas

  • None

Citations

  • Lu, R. J.-H., Liu, Y.-T., Huang, C. W., Yen, M.-R., Lin, C.-Y., & Chen, P.-Y. (2021). [ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq](https://doi.org/10.3389/fgene.2020.618478). *Frontiers in Genetics*, 11. doi: 10.3389/fgene.2020.618478
  • ATACgraph tagged publications in the Galaxy Publication Library

Sponsors

  • [Institute of Plant and Microbial Biology](https://ipmb.sinica.edu.tw/) and [Institute of Information Science](https://www.iis.sinica.edu.tw/), [Academia Sinica](https://www.sinica.edu.tw/), Taipei, Taiwan
  • [Department of Medicine](https://internalmedicine.wustl.edu/), [Washington University in St. Louis](https://wustl.edu/), St. Louis, MO, United States