Skip to main content

CLeaning to Analysis: Reproducibility-based Interface for Traits and Exposures

Project description docs/source/_static/clarite_logo.png

CLeaning to Analysis: Reproducibility-based Interface for Traits and Exposures


In order to use the ewas_r function, it is recommended to install CLARITE using Conda:

  1. Create and activate a conda environment with python 3.6 or 3.7:

    $ conda create -n clarite python=3.7
    $ conda activate clarite
  2. Install rpy2 (optional). CLARITE has a version of the EWAS function that calls R code using the survey library:

    $ conda install -c conda-forge rpy2
  3. Install CLARITE:

    $ pip install clarite
  4. Install required R packages (such as survey) (optional):

    $ clarite-cli utils install-r-packages


1. Lucas AM, et al (2019) CLARITE facilitates the quality control and analysis process for EWAS of metabolic-related traits. Frontiers in Genetics: 10, 1240

2. Passero K, et al (2020) Phenome-wide association studies on cardiovascular health and fatty acids considering phenotype quality control practices for epidemiological data. Pacific Symposium on Biocomputing: 25, 659

Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

clarite-1.0.0.tar.gz (92.5 kB view hashes)

Uploaded Source

Built Distribution

clarite-1.0.0-py3-none-any.whl (65.3 kB view hashes)

Uploaded Python 3

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page