Manhattan Harvester and Cropper: a system for GWAS peak detection.

ABSTRACT:

Background

Selection of interesting regions from genome wide association studies (GWAS) is typically performed by eyeballing of Manhattan Plots. This is no longer possible with thousands of different phenotypes. There is a need for tools that can automatically detect genomic regions that correspond to what the experienced researcher perceives as peaks worthwhile of further study.

Results

We developed Manhattan Harvester, a tool designed for "peak extraction" from GWAS summary files and computation of parameters characterizing various aspects of individual peaks. We present the algorithms used and a model for creating a general quality score that evaluates peaks similarly to that of a human researcher. Our tool Cropper utilizes a graphical interface for inspecting, cropping a

SUBMITTER: Haller T 

PROVIDER: S-EPMC6330393 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature