BOL

github.com - GRASS (GeneRic ASsembly Scaffolder)-a novel algorithm for scaffolding second-generation sequencing assemblies capable of using diverse information sources. GRASS offers a mixed-integer programming formulation of the contig scaffolding problem, which...

When you're just starting out with biological programming, it's easy to run into complex problems that make you wonder how anyone has ever managed to write a program.

Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines allows the optimization of parameters, which...

PhD opportunity at Université de Liège - Belgium The Bioinformatics and Systems Biology Unit of Université de Liège (Belgium) is looking for a highly motivated master student with programming skills for a PhD thesis project (4 years, fully...

github.com - pbalign aligns PacBio reads to reference sequences, filters aligned reads according to user-specific filtering criteria, and converts the output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5) format. The output Compare HDF5 file...

bioinformatics.oxfordjournals.org - An ultra–high-performance protein–protein docking software for heterogeneous supercomputers Summary: The application of protein–protein docking in large-scale interactome analysis is a major challenge in structural bioinformatics...

Command line to install Trinity !

GrapheR: A GUI for base graphics in R

pybedtools is a Python wrapper for Aaron Quinlan's BEDtools programs

Meaningful analysis of next-generation sequencing (NGS) data, which are produced extensively by genetics and genomics studies, relies crucially on the accurate calling of SNPs and genotypes. Recently developed statistical methods both improve and...