ELSA is an economic, fast and accurate solution for the secondary analysis of next generation sequencing data.
It can process a 50-fold whole genome sequence (WGS) sample from raw reads to variants, including single nucleotide polymorphism (SNP), and insertion and deletion (INDEL), in about 4 hours, or just 10 minutes for a 200-fold whole exome sequence (WES) sample.
ELSA’s speed is rooted at its parallel algorithms to effectively exploit a CPU SIMD, or a GPU (BALSA*) to speed up processes like alignment, score recalibration, INDEL realignment, de-duplication and variant calling.It incorporates a 16-genotype model to support the calling of SNPs and INDELs.
Validation of the final results with the NIST Genome In A Bottle standard demonstrates that ELSA analysis pipeline has the highest combined sensitivity and precision.
* Luo R, Wong Y, Law W, Lee L, Cheung J, Liu C, Lam T. (2014) BALSA: integrated secondary analysis for whole-genome and whole-exome sequencing, accelerated by GPU.PeerJ 2:e421 dx.doi.org/10.7717/peerj.421
