Search Results for "linux command" - Page 4
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Showing 223 open source projects for "linux command"
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CUSHAW2: Parallel Gapped Read Alignment
One of the leading short-/long-read aligner to large genomes
CUSHAW2 is a fast and parallel gapped read alignment to large genomes, such as the human genome. The performance evaluation, by aligning simulated and real datasets to the human genome, shows that CUSHAW2 is consistently among the highest-ranked aligners in terms of alignment quality for both single-end and paired-end alignment, while demonstrating highly competitive speed. Furthermore, our aligner shows good parallel scalability with respect to the number of CPU threads. -
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A light-weight Regular Expression (regex) C library, using double-recursion. (command prompt tester included)
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BudgetedSVM
BudgetedSVM: A C++ Toolbox for Large-scale, Non-linear Classification
We present BudgetedSVM, a C++ toolbox containing highly optimized implementations of three recently proposed algorithms for scalable training of Support Vector Machine (SVM) approximators: Adaptive Multi-hyperplane Machines (AMM), Budgeted Stochastic Gradient Descent (BSGD), and Low-rank Linearization SVM (LLSVM). BudgetedSVM trains models with accuracy comparable to LibSVM in time comparable to LibLinear, as it allows solving highly non-linear classi fication problems with millions of... -
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SEO & SEM - Marketing Text Writer
Open Source SEO & SEM Text Creation Tools for free Article Writer
Open Source Tool for Search Engine Optimization (SEO & SEM) used for automatic content processing. These SEO Content Genrators and Article Writers based on Text... -
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Graphal
Graph algorithms interpreter, IDE, debugger, 3D visualizations.
Graphal is an interpreter of a programming language that is mainly oriented to graph algorithms. There is a command line interpreter and a graphical integrated development environment. The IDE contains text editor for programmers, compilation and script output, advanced debugger and visualization window. The progress of the interpreted and debugged graph algorithm can be displayed in 3D scene. -
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JCycles
[frozen] A library for computing cycles in graphs or in Java code.
[This project is frozen, but has an offspring with more features: https://github.com/jeffhain/jadecy ] JCycles provides treatments to compute cycles, or just strongly connected components, in directed graphs in general, or in classes or packages dependencies graphs parsed from class files (major version <= 51, else does best effort). It uses Tarjan's algorithm for SCCs, and Johnson's for cycles, with continuations instead of recursion, which allows to handle large graphs (<... -
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The fstrcmp project provides a shared library for making fuzzy string comparisons, and also provides an fstrcmp command for use in shell scripts.
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ktree
clustering, machine learning, algorithms
This project has moved to github at http://lmwtree.devries.ninja. -
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drvq
dimensionality-recursive vector quantization
drvq is a C++ library implementation of dimensionality-recursive vector quantization, a fast vector quantization method in high-dimensional Euclidean spaces under arbitrary data distributions. It is an approximation of k-means that is practically constant in data size and applies to arbitrarily high dimensions but can only scale to a few thousands of centroids. As a by-product of training, a tree structure performs either exact or approximate quantization on trained centroids, the latter... -
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This library implements a thread-safe skip list data structure - a kind of list with good insertion, deletion and searching performances. It uses Fred Fish's dbug library as internal tracing/debugging system. See the web site for more details.
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Funnel Sort
command line sort utility
Moved to GitHub https://github.com/fedups A command-line utility to sort files. Funnel is a sort utility to sort files, large and small. It efficiently handles fixed length records and variable length records. Funnel easily handles ascii (readable) data and binary data. There are many more features in Funnel. It is easy to use and very fast. All documentation is on the Wiki. -
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DDMTestbed
An independent Data Distribution Management testbed
DDMTestbed is a testbed that allows you to generate random instances and evaluate your proposed resolutive method measuring execution time, memory occupied and distance from the optimal solution. It has been written in C language. -
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PPSeq: Parallel NGS Analysis
Parallel Processing for Next-Generation Sequencing (NGS) Analysis
High-throughput next generation sequencing (NGS) technology has quickly emerged as a powerful tool in many aspects of biomedical research. However, along with its rapid development, the data magnitude and analysis complexity for NGS far exceed the capacity and capability of traditional small-scale computing facilities, such as multithreading algorithms on standalone workstations. To address this issue, here we present a solution using the ever-increasing supply of processing power by massive... -
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gridrpcdm
Library implementing the GridRPC and GridRPC DM OGF stantards.
This library is a common implementation of both the Open Grid Forum GridRPC API _and_ GridRPC API Data Management standards. It is completely modular and already supports middleware modules for DIET and Ninf, as well as data manager modules for iRods, OwnCloud, rsync, scp. The installation is made easy with cmake and testing examples can be launched in a one line command. -
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Dantzig-Wolfe Solver
An implementation of Dantzig-Wolfe decomposition built upon GLPK
An implementation of Dantzig-Wolfe decomposition built upon the GNU Linear Programming Kit. This is a command line tool for solving properly decomposed linear programs. There are several examples and some documentation to guide the use of this solver. Forked over to GitHub (see link). -
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I is a cross-platform programming language designed towards efficiency during development and at runtime.
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libfgen
Library for optimization using a genetic algorithm or particle swarms
libfgen is a library that implements an efficient and customizable genetic algorithm (GA). It also provides particle swarm optimization (PSO) functionality and an interface for real-valued function minimization or model fitting. It is written in C, but can also be compiled with a C++ compiler. Both Linux and Windows are supported. -
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PopED (Population Experimental Design) is a software tool for computing optimal experimental designs. The software has been developed with an emphasis on drug trials based on population models (non-linear mixed effects models).
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tway
moved to https://github.com/sroycode/tway
Currently two way astar is implemented. For those interested I have uploaded a patch of this for pgrouting v1.05 moved to https://github.com/sroycode/tway -
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lpg_ptbr
The Linux Programmer's Guide em pt_BR
The Linux Programmer's Guide em português do Brasil -
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Search Agents - a framework for collaboration of meta-heuristic agents
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gundercrypt [MOVED]
A CLI text encrypting/ciphering program and library for java
** MOVED: to github.com/gundermanc/gundercrypt A CLI text ciphering program and library written in java that makes use of pseudo random numbers and a password (provided by the user) to generate encrypted text by selectively shifting each subsequent letter by a pseudo-random index, encoding it as a letter stored in a hidden position within the String, and then re shifting the encrypted String again by numeric values deduced from a password to provide a dual layer of security. Easily can be...
