… It supports visualization of the data, file I/O and database I/O. This more basic functionality
is complemented by a variety of algorithms for data analysis. All key analysis steps like signal …

All cancers carry somatic mutations. A subset of these somatic alterations, termed driver
mutations, confer selective growth advantage and are implicated in cancer development, …

We describe Manta, a method to discover structural variants and indels from next generation
sequencing data. Manta is optimized for rapid germline and somatic analysis, calling …

Background Isolates of methicillin-resistant Staphylococcus aureus (MRSA) belonging to a
single lineage are often indistinguishable by means of current typing techniques. Whole-…

Motivation: Experimental techniques in proteomics have seen rapid development over the
last few years. Volume and complexity of the data have both been growing at a similar rate. …

The Tasmanian devil (Sarcophilus harrisii), the largest marsupial carnivore, is endangered
due to a transmissible facial cancer spread by direct transfer of living cancer cells through …

Whole genome amplification by the multiple displacement amplification (MDA) method
allows sequencing of DNA from single cells of bacteria that cannot be cultured. Assembling a …

Motivation: Mate pair protocols add to the utility of paired-end sequencing by boosting the
genomic distance spanned by each pair of reads, potentially allowing larger repeats to be …

The airways of individuals with cystic fibrosis (CF) often become chronically infected with
unique strains of the opportunistic pathogen Pseudomonas aeruginosa . Several lines of …

… The charge of each feature is determined by fitting a theoretical isotope model based on the
average composition of a peptide for a given mass as proposed earlier (Schulz-Trieglaff et al…