2590 days ago
Mesquite: A modular system for evolutionary analysis
...help biologists organize and analyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules concern population genetics, while others do non...2481 days ago
2460 days ago
MetaSim A Sequencing Simulator for Genomics and Metagenomics.
...of the NCBI taxonomy, and then to collect reads from the metagenome using a simulation of a number of different sequencing technologies. A population sampler optionally produces e...2342 days ago
GPOPSIM: a simulation tool for whole-genome genetic data
GPOPSIM is a simulation tool for pedigree, phenotypes, and genomic data, with a variety of population and genome structures and trait genetic architectures. It provides flexible paramet...2298 days ago
Mesquite: A modular system for evolutionary analysis
...help biologists organize and analyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules concern population genetics, while others do non...2243 days ago
EWAS: epigenome-wide association study software 2.0
...ions and disease/phenotype. On the basis of EWAS1.0, we have added more distinctive features. EWAS2.0 software was developed based on our “population epigenetic framework” a...2234 days ago
HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
...ion sequencing reads (both DNA and RNA) to a population of human genomes (as well as...using one global GFM index that represents a population of human genomes, HISAT2 uses...ith 55,000 indexes needed to cover the human population). These small indexes (called...2187 days ago
2067 days ago
HipSTR: Haplotype inference and phasing for Short Tandem Repeats
...particular, it accomplishes this by: Learning locus-specific PCR stutter models using an EM algorithm Mining candidate STR alleles from population-scale sequencing data Employ...1883 days ago