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BMCBI
2011
13 years 2 months ago
PhyloSim - Monte Carlo simulation of sequence evolution in the R statistical computing environment
Background: The Monte Carlo simulation of sequence evolution is routinely used to assess the performance of phylogenetic inference methods and sequence alignment algorithms. Progr...
Botond Sipos, Tim Massingham, Gregory E. Jordan, N...
ASPLOS
2011
ACM
12 years 11 months ago
Mementos: system support for long-running computation on RFID-scale devices
Transiently powered computing devices such as RFID tags, kinetic energy harvesters, and smart cards typically rely on programs that complete a task under tight time constraints be...
Benjamin Ransford, Jacob Sorber, Kevin Fu
BMCBI
2011
12 years 11 months ago
ShoRAH: estimating the genetic diversity of a mixed sample from next-generation sequencing data
Background: With next-generation sequencing technologies, experiments that were considered prohibitive only a few years ago are now possible. However, while these technologies hav...
Osvaldo Zagordi, Arnab Bhattacharya, Nicholas Erik...
BMCBI
2011
12 years 11 months ago
PeakRanger: A cloud-enabled peak caller for ChIP-seq data
Background: Chromatin immunoprecipitation (ChIP), coupled with massively parallel short-read sequencing (seq) is used to probe chromatin dynamics. Although there are many algorith...
Xin Feng, Robert Grossman, Lincoln Stein
JCC
2011
154views more  JCC 2011»
12 years 10 months ago
Can we trust docking results? Evaluation of seven commonly used programs on PDBbind database
: Docking is one of the most commonly used techniques in drug design. It is used for both identifying correct poses of a ligand in the binding site of a protein as well as for the ...
Dariusz Plewczynski, Michal Lazniewski, Rafal Augu...