Some useful utilities for working with PGS Catalog data

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License: Apache Software License (Apache-2.0)

Author: Benjamin Wingfield

Requires: Python >=3.10, <4.0

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Project description

PGS Catalog utilities

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This repository is a collection of useful tools for working with data from the PGS Catalog. This is mostly used internally by the PGS Catalog calculator, but other users might find some of these tools helpful.

Overview

  • download_scorefiles: Download scoring files by PGS ID (accession)
  • combine_scorefile: Combine multiple scoring files into a single scoring file in 'long' format
  • match_variants: Match target variants (bim or pvar files) against the output of combine_scorefile to produce scoring files for plink 2

Installation

TODO:

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License: Apache Software License (Apache-2.0)

Author: Benjamin Wingfield

Requires: Python >=3.10, <4.0

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