FineMAV
This stand-alone program implements the Fine-Mapping of Adaptive Variation (FineMAV) statistic for detection of positively selected variants.
The FineMAV score of the derived allele for each SNP is calculated by multiplying three metrics:
- Derived allele purity -- measure of population differentiation that ranges from 0 to 1, where a score of 1 indicates that all the derived alelles fall into a single population.
- Derived allele frequency
- The Combined Annotation-Dependent Depletion PHRED-scaled C-score (CADD_PHRED) -- a measure of functionality
For more information about this program, including installing and running the software on Linux, please visit our wiki.
News
GUI version
4th May 2021 : We recently released the GUI version of FineMAV for Linux. For more information on how to install and launch the GUI version of the software, please visit our wiki.
Citation
If you utilise this program, please cite the following papers together:
Wahyudi, F., Aghakhanian, F., Rahman, S. et al. Prioritising positively selected variants in whole-genome sequencing data using FineMAV. BMC Bioinformatics 22, 604 (2021). https://doi.org/10.1186/s12859-021-04506-9 Szpak, M., Mezzavilla, M., Ayub, Q. et al. FineMAV: prioritizing candidate genetic variants driving local adaptations in human populations. Genome Biol 19, 5 (2018). https://doi.org/10.1186/s13059-017-1380-2