Converting Fusion weight to PredictDB format

how_to

Author

Sabrina Mi

Published

June 22, 2020

If you want to use the MetaXcan suite of tools, you will need to format your prediction weights in sqlite format.

how to convert fusion weights to predictdb format (sqlite)

Find a sample script that formats FUSION weights to predictdb format here

how to compute covariances between SNPs to use summary PrediXcan

If you want to use the summary version of PrediXcan, you will also need the covariances between SNPs Fine a sample script here

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---
title: Converting Fusion weight to PredictDB format
author: Sabrina Mi
date: '2020-06-22'
slug: fusion-to-predictdb-format
categories:
  - how_to
tags: []
---

If you want to use the MetaXcan suite of tools, you will need to format your prediction weights in sqlite format.

## how to convert fusion weights to predictdb format (sqlite)
Find a sample script that formats FUSION weights to predictdb format [here](https://hakyimlab.github.io/psychencode/generate_weights.html)

## how to compute covariances between SNPs to use summary PrediXcan
If you want to use the summary version of PrediXcan, you will also need the covariances between SNPs
Fine a sample script [here](https://hakyimlab.github.io/psychencode/calculate_covariances.html)