Documentation
Phenotype PredictionPhenotype Prediction
Using SNP effect estimation from GWAS or MLM analysis, DISSECT could be used for predicting phenotypes based on genotype data. The prediction is based on the contribution of each SNP based on their effect size and each individual genotype.
Examples
Predict phenotypes from SNP effects stored in effects.snps for individuals with genotypes specified in genotypes file.
dissect --predict --bfile genotypes --snp-effects effects.snps --out results
Options
Analysis Options
--predict |
Predict phenotypes |
Input Options
--bfile f |
Specify a genotypes file. |
--bfile-list f |
Specify a file with a list of genotypes files. |
--snp-effects f |
Specify the file with SNPs effects. This file must have a structure similar to the SNPs effect output of GWAS or MLM analyses. More information in MLM and GWAS. |
Output Options
--out f |
Specify the base name for output files. |
Output description
One file is generated after a phenotypes prediction
Phenotypes file
file extension: .predicted.phenos
This file contains the simulated phenotypes. File without header. Their columns are:
| Column 1 | Family ID |
| Column 2 | Individual ID |
| Cloumn 3 |
Predicted phenotypes |
| Cloumn 4 |
For internal use |
| Cloumn 5 |
For internal use |