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Supported Applications

Cell Ranger ATAC

  • Description

    a set of analysis pipelines that perform identification of open chromatin regions, motif annotation, and differential accessibility analysis for Single Cell ATAC data.

  • Usage

    To list all executables provided by Cell Ranger ATAC, run: $ biogrids-list cellranger-atac Copy to clipboard
  • Usage Notes

    This installation is provided by SBGrid and is not supported by 10x Genomics, but the 10x Genomics EULA still applies: https://support.10xgenomics.com/docs/license

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install cellranger-atac Copy to clipboard Available operating systems: Linux 64
  • Primary Citation*

    A. T. Satpathy, J. M. Granja, K. E. Yost, Y. Qi, F. Meschi, G. P. McDermott, B. N. Olsen, M. R. Mumbach, S. E. Pierce, M. R. Corces, P. Shah, J. C. Bell, D. Jhutty, C. M. Nemec, J. Wang, L. Wang, Y. Yin, P. G. Giresi, A. L. S. Chang, G. X. Y. Zheng, W. J. Greenleaf, and H. Y. Chang. 2019. Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion. Nature biotechnology. 37(8): 925-936.

    • *Full citation information available through

  • Keywords

    scRNA-Seq Analysis

  • Default Versions

    Linux 64:  2.1.0 (1.5 GB)

  • Other Versions

      Linux 64:

      2.0.0 (1.6 GB)