An approximate Bayesian approach for mapping paired-end DNA reads to a reference genome
Protein signature-based estimation of metagenomic abundances including all domains of life and viruses
The prediction of organelle-targeting peptides in eukaryotic proteins with Grammatical-Restrained Hidden Conditional Random Fields
Making automated multiple alignments of very large numbers of protein sequences
Improvements on bicriteria pairwise sequence alignment: algorithms and applications
EBARDenovo: highly accurate de novo assembly of RNA-Seq with efficient chimera-detection
Measuring guide-tree dependency of inferred gaps in progressive aligners
Prediction of contact matrix for protein–protein interaction
Accounting for non-genetic factors by low-rank representation and sparse regression for eQTL mapping
EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments
Systematic parameter estimation in data-rich environments for cell signalling dynamics
An improved constraint filtering technique for inferring hidden states and parameters of a biological model
Robust data-driven incorporation of prior knowledge into the inference of dynamic regulatory networks
PLncDB: plant long non-coding RNA database
QUAST: quality assessment tool for genome assemblies
Wessim: a whole-exome sequencing simulator based on in silico exome capture
GalaxyGemini: a web server for protein homo-oligomer structure prediction based on similarity
PLRS: a flexible tool for the joint analysis of DNA copy number and mRNA expression data
DeconRNASeq: a statistical framework for deconvolution of heterogeneous tissue samples based on mRNA-Seq data
PleioGRiP: genetic risk prediction with pleiotropy
Nozzle: a report generation toolkit for data analysis pipelines
ChemoPy: freely available python package for computational biology and chemoinformatics
IRootLab: a free and open-source MATLAB toolbox for vibrational biospectroscopy data analysis
Planform: an application and database of graph-encoded planarian regenerative experiments
Genetic Simulation Resources: a website for the registration and discovery of genetic data simulators
BioJS: an open source JavaScript framework for biological data visualization