ParaHaplo is developing parallel computing tools for genome-wide association studies.
We developed GeneWaltz, a new filtering method for reducing the risk of false positives of gene finding, especially when the exons are short. A codon-to-codon substitution matrix was constructed by comparing CDSs from the orthologous gene pairs between mice and humans. By using the matrix, a scoring scheme was developed such that it assigned higher scores to CDSs and lower scores to non-CDSs. The regions with high scores were the candidate CDSs. One-dimensional Karlin-Altschul statistics was used to test the significance of the CDSs identified by GeneWaltz. Evaluation of GeneWaltz using annotated CDSs showed that GeneWaltz filters out false positives of CDSs
