FastQTL(1) | General Commands Manual | FastQTL(1) |
FastQTL - Quantitative Trait Loci (QTL) mapper in cis for molecular phenotypes
fastQTL [options]
The goal of FastQTL is to identify single-nucleotide polymorphisms (SNPs) which are significantly associated with various molecular phenotypes (i.e. expression of known genes, cytosine methylation levels, etc). It performs scans for all possible phenotype-variant pairs in cis (i.e. variants located within a specific window around a phenotype). FastQTL implements a new permutation scheme (Beta approximation) to accurately and rapidly correct for multiple-testing at both the genotype and phenotype levels.
for c in $(seq 1 256); do
fastQTL --vcf genotypes.vcf.gz
--bed phenotypes.bed.gz
--chunk $c 256
--permute 1000
--out results.$c.txt.gz
done
zcat results.*.txt.gz | gzip -c > fastqtl_expected_output.txt.gz
http://fastqtl.sourceforge.net/
FastQTL was written by Olivier Delaneau, Halit Ongen, Alfonso Buil and Manolis Dermitzakis.
This manual page was written by Dylan Aïssi <bob.dybian@gmail.com>, for the Debian project (but may be used by others).
March 2016 | 2.184 |