:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'tobias' .. highlight: bash tobias ====== .. conda:recipe:: tobias :replaces_section_title: :noindex: Transcription factor Occupancy prediction By Investigation of ATAC\-seq Signal :homepage: https://github.com/loosolab/TOBIAS :documentation: https://github.com/loosolab/TOBIAS/wiki :developer docs: https://pypi.org/project/tobias/ :license: MIT / MIT :recipe: /`tobias `_/`meta.yaml `_ :links: biotools: :biotools:`TOBIAS`, doi: :doi:`10.1038/s41467-020-18035-1` TOBIAS \(Transcription factor Occupancy prediction By Investigation of ATAC\-seq Signal\) is a collection of command\-line bioinformatics tools for performing footprinting analysis on ATAC\-seq data. .. conda:package:: tobias |downloads_tobias| |docker_tobias| :versions: .. raw:: html
0.16.1-00.16.0-00.15.1-00.13.3-10.13.3-00.13.2-10.13.2-00.13.1-00.13.0-0 ``0.16.1-0``,  ``0.16.0-0``,  ``0.15.1-0``,  ``0.13.3-1``,  ``0.13.3-0``,  ``0.13.2-1``,  ``0.13.2-0``,  ``0.13.1-0``,  ``0.13.0-0``,  ``0.12.12-0``,  ``0.12.11-0``,  ``0.12.10-1``,  ``0.12.10-0``,  ``0.12.9-0``,  ``0.12.8-0``,  ``0.12.7-0``,  ``0.12.6-0``,  ``0.12.4-0``,  ``0.12.3-0``,  ``0.12.1-0``,  ``0.12.0-0``,  ``0.11.6-1``,  ``0.11.6-0``,  ``0.11.4-0``,  ``0.11.3-0``,  ``0.11.2-0``,  ``0.11.1-0``,  ``0.11.0-0``,  ``0.9.0-0``,  ``0.8.0-0``,  ``0.7.0-0``,  ``0.6.4-0``,  ``0.6.1-0``,  ``0.5.0-0`` .. raw:: html
:depends adjusttext: :depends boto3: :depends importlib-metadata: :depends kneed: :depends libgcc-ng: ``>=12`` :depends logomaker: :depends matplotlib-base: ``>=2`` :depends moods: :depends numpy: ``>=1.21.6,<2.0a0`` :depends pandas: :depends pybedtools: :depends pybigwig: ``>=0.3`` :depends pypdf2: :depends pysam: :depends python: ``>=3.10,<3.11.0a0`` :depends python_abi: ``3.10.* *_cp310`` :depends pyyaml: ``>5.1`` :depends scikit-learn: :depends scipy: :depends seaborn: ``>=0.9.1`` :depends svist4get: ``>=1.2.24`` :depends xgboost: ``>=0.71`` :depends xlsxwriter: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`set-up-channels`). While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see `here `_ for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others. Given that you already have a conda environment in which you want to have this package, install with:: mamba install tobias and update with:: mamba update tobias To create a new environment, run:: mamba create --name myenvname tobias with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs `_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/tobias: (see `tobias/tags`_ for valid values for ````) .. |downloads_tobias| image:: https://img.shields.io/conda/dn/bioconda/tobias.svg?style=flat :target: https://anaconda.org/bioconda/tobias :alt: (downloads) .. |docker_tobias| image:: https://quay.io/repository/biocontainers/tobias/status :target: https://quay.io/repository/biocontainers/tobias .. _`tobias/tags`: https://quay.io/repository/biocontainers/tobias?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| badge with the following MarkDown:: [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/tobias/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/tobias/README.html