SHEAR is a tool for next-generation sequencing data analysis that predicts SVs, accounts for heterogeneous variants by estimating their representative percentages, and generates personal genomic sequences to be used for downstream analysis.
Homo is a program written to allow its users to check whether aligned nucleotide or amino acid sequences are consistent with evolution under globally stationary, reversible, and homogeneous (SRH) conditions.
SeqVis is a stand-alone, platform-independent Java application developed with the aim to facilitate analysis and 3D visualization of compositional heterogeneity in species-rich alignments of nucleotide sequences. Each sequence is represented by a dot in a tetrahedron plot (i.e., an extension of the de Finetti), where the position of the dot depends uniquely on the nucleotide content of that sequence. Sequences that are compositionally different will appear as dots found in different areas within the tetrahedron. SeqVis also allows users to analyse their data set using, for example, the useful matched-pairs test of symmetry (Ababneh et al. 2006)