PT  - JOURNAL ARTICLE
AU  - Jennifer N. French
AU  - Brady J. Gaynor
AU  - James A. Perry
TI  - Conditional Analysis Cakewalk
AID  - 10.1101/2020.02.14.947978
DP  - 2020 Jan 01
TA  - bioRxiv
PG  - 2020.02.14.947978
4099  - http://biorxiv.org/content/early/2020/02/14/2020.02.14.947978.short
4100  - http://biorxiv.org/content/early/2020/02/14/2020.02.14.947978.full
AB  - Summary Sequential conditional analysis is an important tool for identifying the unique signals in single-variant association analysis between genomic variants and various phenotypic outcomes. With large datasets, it is tedious and time-consuming to manually run the sequential steps which require the association analysis, computation of linkage disequilibrium (LD) between the variants, generation of a visualization graphic, and identification of the “top hit” to be inserted as an additional covariate for the next iteration. The Conditional Analysis Cakewalk automates this process, making it easy and fast, while only requiring user input in the initial configuration steps.Availability and Implementation The Conditional Analysis Cakewalk is implemented as a Linux shell script utilizing MMAP or PLINK and LocusZoom. Source code and documentation are available at https://github.com/jennetics/Cakewalk.