Resources
Computational tools and software
Asymptotic McDonald-Kreitman Test
Estimates the fraction of substitutions driven by positive selection while correcting for slightly deleterious mutations. Implemented as a web service in R using FastRWeb.
Reference: BC Haller, PW Messer (2017), G3: Genes, Genomes, Genetics
Gene Drive Resistance
C++ program for calculating driver allele frequency trajectories and resistance mutation rates. Outputs frequency projections, mutation rates, selection coefficients, and establishment probabilities.
Reference: RL Unckless, AG Clark, PW Messer (2017), Genetics
H-scan
Detects selective sweeps by measuring average homozygosity tract lengths. A C++ command-line program released under the GNU General Public License.
Indel Trace Extension
Analyzes insertion/deletion events to determine if they represent duplications of adjacent sequences.
Reference: PW Messer, PF Arndt (2007), Molecular Biology and Evolution
CorGen
Measures and generates DNA sequences with specified long-range correlations. Analyzes composition correlation functions and generates random sequences with matching parameters.
Reference: PW Messer, PF Arndt (2006), Nucleic Acids Research