|DOI| |Stars| |Compatible| |PyPI| |PyPiDownloads| |Contributions Welcome| |Build Status|
|Docs Status| |Pre-commit| |Codecov| |License| |Code Style|
Trisicell - |subst|
===================
.. image:: https://raw.githubusercontent.com/faridrashidi/trisicell/master/docs/source/_static/images/overview.png
:target: https://github.com/faridrashidi/trisicell
:alt: overview
:align: center
Trisicell (**Tri**\ ple-toolkit for **si**\ ngle-\ **cell** intratumor
heterogeneity inference), pronounced as "tricycle", is a new computational
toolkit for scalable intratumor heterogeneity inference and evaluation from
single-cell RNA, as well as single-cell genome or exome, sequencing data.
Trisicell utilizes expressed SNVs and Indels to infer evolutionary
relationships between genomic alterations and the cells that harbor them.
Support
-------
Feel free to submit an `issue <https://github.com/faridrashidi/trisicell/issues/new/choose>`_.
Your help to improve Trisicell is highly appreciated.
Trisicell was developed in collaboration between the `Cancer Data Science Laboratory (CDSL) <https://ccr.cancer.gov/staff-directory/s-cenk-sahinalp>`_ and the `Laboratory of Cancer Biology and Genetics (LCBG) <https://ccr.cancer.gov/staff-directory/glenn-merlino>`_ at the `National Cancer Institute (NCI) <https://www.cancer.gov>`_.
.. |subst| replace:: Scalable intratumor heterogeneity inference and validation
from single-cell data
.. |DOI| image:: https://img.shields.io/badge/DOI-10.1101/2021.03.26.437185-orange?logo=gitbook&logoColor=FFFFFF&style=flat-square
:target: https://doi.org/10.1101/2021.03.26.437185
:alt: DOI
.. |PyPI| image:: https://img.shields.io/pypi/v/trisicell?logo=PyPi&logoColor=FFFFFF&style=flat-square&color=blue
:target: https://pypi.org/project/trisicell
:alt: PyPI
.. |PyPyDownloads| image:: https://img.shields.io/badge/dynamic/json?logo=PyPi&logoColor=FFFFFF&style=flat-square&color=blue&label=downloads&query=%24.total_downloads&url=https%3A%2F%2Fapi.pepy.tech%2Fapi%2Fprojects%2Ftrisicell
:target: https://pepy.tech/project/trisicell
:alt: PyPyDownloads
.. |PyPiDownloads| image:: https://img.shields.io/pypi/dm/trisicell.svg?logo=docusign&logoColor=FFFFFF&style=flat-square&color=blue
:target: https://pepy.tech/project/trisicell
:alt: PyPiDownloads
.. |Stars| image:: https://img.shields.io/github/stars/faridrashidi/trisicell?logo=GitHub&color=yellow&style=flat-square
:target: https://github.com/faridrashidi/trisicell
:alt: Stars
.. |Contributions Welcome| image:: https://img.shields.io/static/v1.svg?label=contributions&message=welcome&color=blue&logo=handshake&logoColor=FFFFFF&style=flat-square
:target: https://github.com/faridrashidi/trisicell/blob/master/CODE_OF_CONDUCT.rst
:alt: Contributions Welcome
.. |Compatible| image:: https://img.shields.io/pypi/pyversions/trisicell.svg?logo=python&logoColor=FFFFFF&style=flat-square&color=blue
:target: https://pypi.org/project/trisicell
:alt: Compatible
.. |Build Status| image:: https://img.shields.io/github/actions/workflow/status/faridrashidi/trisicell/ci.yml?branch=master&label=build&logo=githubactions&logoColor=FFFFFF&style=flat-square
:target: https://github.com/faridrashidi/trisicell/actions?query=workflow%3ACI
:alt: Build Status
.. |Docs Status| image:: https://img.shields.io/readthedocs/trisicell/latest?logo=readthedocs&logoColor=FFFFFF&style=flat-square
:target: https://trisicell.readthedocs.io
:alt: Docs Status
.. |Pre-commit| image:: https://img.shields.io/badge/pre--commit.ci-passing-brightgreen?logo=pre-commit&logoColor=white&style=flat-square
:target: https://results.pre-commit.ci/latest/github/faridrashidi/trisicell/master
:alt: Pre-commit
.. |Code Style| image:: https://img.shields.io/badge/code%20style-black-000000.svg?logo=visualstudiocode&logoColor=FFFFFF&style=flat-square
:target: https://github.com/python/black
:alt: Code Style
.. |Code Score| image:: https://img.shields.io/lgtm/grade/python/github/faridrashidi/trisicell.svg?logo=lgtm&logoWidth=18&style=flat-square
:target: https://lgtm.com/projects/g/faridrashidi/trisicell/context:python
:alt: Code Score
.. |Codecov| image:: https://img.shields.io/codecov/c/github/faridrashidi/trisicell?logo=codecov&logoColor=white&style=flat-square
:target: https://codecov.io/gh/faridrashidi/trisicell
:alt: Codecov
.. |License| image:: https://img.shields.io/pypi/l/trisicell.svg?logo=creativecommons&logoColor=FFFFFF&style=flat-square&color=blueviolet
:target: https://github.com/faridrashidi/trisicell/blob/master/LICENSE
:alt: License
.. _preprint: https://doi.org/10.1101/2021.03.26.437185
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