Analysis of Next Generation Sequencing Data
Accurate Species tree algorithm
Population genomics software which is aimed at identifying genetic markers subjected to selection and/or associated to population-specific covariates
Basic Local Alignment Search Tool
ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences
Bayesian species delimitation using multilocus sequence data
clustering and comparing protein or nucleotide sequences.
program that uses seeded guide trees and HMM profile-profile techniques to generate multiple sequence alignments
Análisis de Variación Genética; Flujo Génico; Coalescencia
Fast sequential Markov coalescent simulation of genomic data under complex evolutionary models
Generalized Mixed Yule Coalescent
biosequence analysis using profile hidden Markov models
Efficient software for phylogenomic inference
Programa de alineamiento múltiple de aminoácidos o secuencias de nucleótidos
Software for demographic history
Species delimitation using the multi-rate Poisson Tree Processes
Accurate inference of orthologs, orthogroups, the rooted species, gene trees and gene duplication events
Software to select best-fit partitioning schemes and models of molecular evolution for phylogenetic analyses
Public database for complete catalogs of gene phylogenies (phylomes)
Bayesian phylogenetic inference using probabilistic graphical models and an interpreted language
Sequence alignment/mapping tool
Haplotype based scans for selection
Software for population genetics simulations
Program for phylogenetic analysis under parsimony
Programa para el análisis de los archivos de traza generados por método Bayesiano MCMC
Tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment
Read trimming tool for NGS data
RNAseq de novo assembly

Mas Software     |    por Joe Felsenstein (University of Washington)   
Mas Software    |   por S. O. Kolokotronis (American Museum of Natural History)