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APN
2011
Springer
12 years 11 months ago
On the Origin of Events: Branching Cells as Stubborn Sets
In prime event structures with binary conflicts (pes-bc)3 a branching cell [1] is a subset of events closed under downward causality and immediate conflict relations. This means ...
Henri Hansen, Xu Wang
BMCBI
2011
12 years 11 months ago
Efficient alignment of pyrosequencing reads for re-sequencing applications
Background: Over the past few years, new massively parallel DNA sequencing technologies have emerged. These platforms generate massive amounts of data per run, greatly reducing th...
Francisco Fernandes, Paulo G. S. da Fonseca, Lu&ia...
BMCBI
2011
12 years 11 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
BMCBI
2011
12 years 11 months ago
Improving pan-genome annotation using whole genome multiple alignment
Background: Rapid annotation and comparisons of genomes from multiple isolates (pan-genomes) is becoming commonplace due to advances in sequencing technology. Genome annotations c...
Samuel V. Angiuoli, Julie C. Dunning Hotopp, Steve...
FAST
2011
12 years 11 months ago
Emulating Goliath Storage Systems with David
Benchmarking file and storage systems on large filesystem images is important, but difficult and often infeasible. Typically, running benchmarks on such large disk setups is a ...
Nitin Agrawal, Leo Arulraj, Andrea C. Arpaci-Dusse...
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