mdsmith/SeqChomp
Shortens the sequences in a Nexus file.
Developer Profile
mdsmith
Discovered public repositories for mdsmith in the GitHub catalog.
mdsmith/RelaxedSim
Simulations!
mdsmith/multiBSREL
A batch file for running BSREL, BSREL3 and MG94 quickly, easily, and comparably.
mdsmith/bsrelBatchRunner
A python program to run BSREL on batches of input Nexus files utilizing bpsh and a cluster.
mdsmith/PyTreeTools
Tree tools in Python
mdsmith/BSRELvarSim
Simulation Study of BSRELvar
mdsmith/oclCalcBench
A suite for testing and benchmarking various memory accession techniques in OpenCL
mdsmith/oclCopyBench
A suite for testing and benchmarking various methods of getting data from host to device. I'm going to go crazy and put reading and writing from device memory in here too. Wow!
mdsmith/CACL
Codon Aligner in OpenCL
mdsmith/IterOptBSREL
HyPhy batch files to iteratively optimize a BSREL model of sequence evolution
mdsmith/BasicFMAtest
Just a basic FMA4 test for our (and potentially your) FMA4 compatible systems (eg. Bulldozer, Interlagos...)
mdsmith/MulMulLibCpp
Multiple multiplication (e.g. exponentiation and maximum likelihood) library accelerated with OpenCL
mdsmith/MatMulLibCpp
OpenCL accelerated Matrix Multiply Library in C++
mdsmith/dot_files
my very basic dot_files
mdsmith/MatMulLibPy
A library for fast Matrix Multiplication in Python, with OpenCL acceleration.
mdsmith/CodonAligner-Validation
For testing and quantifying the advantages of a codon aligner in 454 sequences.
mdsmith/MLEpyOCL
using pyOpenCL to accelerate a model of MLE
mdsmith/hyphy
HyPhy: Hypothesis testing using Phylogenies
mdsmith/OCLHYPHY
OCL implementation of the maximum likelihood calculation.
mdsmith/ScreenSpin
A fun shell script for checking whether or not you are in an instance of GNU Screen
mdsmith/OCLhyphyTree
OpenCL implementation of HYPHY's Maximum Likelihood loops