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"planemo upload for repository https://github.com/kpbioteam/ewas_galaxy commit 9363395728213b6d82e606c5513709c54af4df09"
author kpbioteam
date Sun, 23 Feb 2020 17:00:42 -0500
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1 [![Build Status](https://travis-ci.org/kpbioteam/ewas_galaxy.svg?branch=master)](https://travis-ci.org/kpbioteam/ewas_galaxy)
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4 # 🔬📚 Infinium Human Methylation BeadChip: a pipeline for population epigenetics integrated into Galaxy
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6 This repository contains Infinium Human Methylation BeadChip pipeline that can be installed and used inside the Galaxy.
8ab24a5229bd "planemo upload for repository https://github.com/kpbioteam/ewas_galaxy commit 323de18b21453fa652ae3abb7e847704e13a65ed"
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7 The Tool is avaliable through [Galaxy Tool Shed](https://toolshed.g2.bx.psu.edu/view/kpbioteam/ewastools/53aaf097238c) and ready to use via [Docker](https://galaxyproject.org/use/ewas-galaxy/).
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9 Analysis pipline includes:
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10 * raw intensity data loading
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11 * .idat preprocessing
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12 * optional normalisation of the data and quality control with additional sample check.
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14 This gives the user the opportunity to perform any of these preparation and data cleaning steps, including a recommended 'genetic variation annotation step'. Finally, the generated dataset can be used to hunt (find) differentially-methylated positions DMP and regions DMR with respect to a phenotype co-variate.