BPrimm (Bayesian and Penalized regression in multiple loci mapping) includes a set of tools for simultaneously multiple loci mapping, and two novel methods named the Bayesian adaptive Lasso and the Iterative Adaptive Lasso
SQTL is a semiparametric quantitative trait loci mapping method to human gene expression data. The SQTL mapping method is rank-based and therefore robust to non-normality and outliers.
Voronto is a tool that integrates expression data and biological ontologies, allowing the analyst to explore the whole ontology and detect changes on expression patterns inside the ontology.
SIfTER is a structure-guided memetic, cellular, and multiscale evolutionary algorithm for mapping protein conformation spaces. It is based instead on stochastic optimization to circumvent the computational challenge of exploring the breadth of a protein’s structure space.
TTS mapping is a web-based search engine to find and annotate pTTSs within human genome region of interest. The engine provides descriptive statistics of pTTSs in a given region and its sequence context. Different annotation tracks of TTS-overlapping gene region(s), G-quadruplex motifs, CpG Island, miRNA precursors, miRNA targets, transcription factor binding sites (TFBSs), Single Nucleotide Polymorphisms (SNPs), small nucleolar RNAs (snoRNA), and repeat elements are also mapped based on sequence location provided by UCSC genome browser, G-quadruplex database and several other datasets.
TreqCG is a method to accelerate and improve read mapping based on an initial clustering of up to billions of high-throughput sequencing reads yielding clusters of high stringency and a high degree of overlap.