raimondsre/polygenictest is a bioinformatics pipeline that calculates individual polygenic score percentile in the population.
- Read genome file
- Apply quality control
- Impute missing genotypes
- Calculate polygenic risk score
Note
If you are new to Nextflow, please refer to this page.
Now, you can run the pipeline using:
nextflow run raimondsre/polygenictest \
-profile <docker/singularity/.../institute> \
--input samplesheet.csv \
--outdir <OUTDIR>
Warning
Please provide pipeline parameters via the CLI or Nextflow -params-file
option. Custom config files including those provided by the -c
Nextflow option can be used to provide any configuration except for parameters;
raimondsre/polygenictest was originally written by raimondsre.
An extensive list of references for the tools used by the pipeline can be found in the CITATIONS.md
file.