Simon A. Berger

Publication Activity (10 Years)

Years Active: 2009-2013
Publications (10 Years): 0

Top Venues

BMC Bioinform.

IPDPS Workshops

Bioinform.

ReConFig

Karlsruhe Institute of Technology (PHD)

Education History

Karlsruhe Institute of Technology

PHD

Publications

Nikolaos Alachiotis, Simon A. Berger, Tomás Flouri, Solon P. Pissis, Alexandros Stamatakis
libgapmis: extending short-read alignments. BMC Bioinform. 14 (S-11) (2013)
Fernando Izquierdo-Carrasco, Nikolaos Alachiotis, Simon A. Berger, Tomás Flouri, Solon P. Pissis, Alexandros Stamatakis
A Generic Vectorization Scheme and a GPU Kernel for the Phylogenetic Likelihood Library. IPDPS Workshops (2013)
Nikolaos Alachiotis, Simon A. Berger, Tomás Flouri, Solon P. Pissis, Alexandros Stamatakis
Libgapmis: An ultrafast library for short-read single-gap alignment. BIBM Workshops (2012)
Alexandros Stamatakis, Andre J. Aberer, Christian Goll, Stephen A. Smith, Simon A. Berger, Fernando Izquierdo-Carrasco
RAxML-Light: a tool for computing terabyte phylogenies. Bioinform. 28 (15) (2012)
Simon A. Berger, Nikolaos Alachiotis, Alexandros Stamatakis
An Optimized Reconfigurable System for Computing the Phylogenetic Likelihood Function on DNA Data. IPDPS Workshops (2012)
Nikolaos Alachiotis, Simon A. Berger, Alexandros Stamatakis
Coupling SIMD and SIMT architectures to boost performance of a phylogeny-aware alignment kernel. BMC Bioinform. 13 (2012)
Nikolaos Alachiotis, Simon A. Berger, Alexandros Stamatakis
A versatile UDP/IP based PC ↔ FPGA communication platform. ReConFig (2012)
Madeleine Seeland, Simon A. Berger, Alexandros Stamatakis, Stefan Kramer
Parallel Structural Graph Clustering. ECML/PKDD (3) (2011)
Simon A. Berger, Alexandros Stamatakis
Aligning short reads to reference alignments and trees. Bioinform. 27 (15) (2011)
Nikolaos Alachiotis, Simon A. Berger, Alexandros Stamatakis
Accelerating Phylogeny-Aware Short DNA Read Alignment with FPGAs. FCCM (2011)
Alexandros Stamatakis, Zsolt Komornik, Simon A. Berger
Evolutionary placement of short sequence reads on multi-core architectures. AICCSA (2010)
Nikolaos Alachiotis, Simon A. Berger, Alexandros Stamatakis
Efficient PC-FPGA Communication over Gigabit Ethernet. CIT (2010)
Simon A. Berger, Alexandros Stamatakis
Accuracy of morphology-based phylogenetic fossil placement under Maximum Likelihood. AICCSA (2010)
Simon A. Berger, Alexandros Stamatakis
Accuracy and Performance of Single versus Double Precision Arithmetics for Maximum Likelihood Phylogeny Reconstruction. PPAM (2) (2009)

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Publication Activity (10 Years)

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Simon A. Berger