Search Results for "core gnu/linux"
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Showing 15 open source projects for "core gnu/linux"
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MMAP
Multi-core Method for Analysis Pipelines
For more information, please see home page. -
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Meraculous-2D
Eukaryotic Genome Assembler
---------------------------------------- IMPORTANT: Meraculous-2D has been superseded by the HipMer assembler, available here: https://sourceforge.net/projects/hipmer/ ----------------------------------------- Meraculous-2D is a whole genome assembler for NGS reads (Illumina) that is capable of assembling large, diploid genomes with modest computational requirements. Features include: - Efficient k-mer counting and deBruijn graph traversal - Two modes of handling of diploid... -
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Panacea
PAN And Core-gEnome Analysis
A tool to calculate the Pan-Genome of a set of annotated genomes -
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Hamstr
A tool for directed ortholog search in ESTs and proteins
HaMStR has moved to https://github.com/bionf/hamstr where it is now part of the HaMStR-OneSeq package. HaMStR is a profile hidden Markov model based tool for a directed ortholog search in EST or protein sequence data. The program takes a pre-defined core group of orthologous sequences (core orthologs) and a set of sequences from a search taxon as input. HaMStR then combines in a two-step strategy a pHMM based search and a reverse search via BLAST to extend the core ortholog group with... -
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The increasing demand of next-generation sequencing (NGS) studies has remarked the necessity of integrated and reliable pipelines to analyse deep-sequencing experiments in an efficient way. We present RUbioSeq+, a stand-alone and multiplatform application for the integrated analysis of NGS data. More specifically, our software implements pipelines for the analysis of single nucleotide and copy-number variation, bisulfite-seq and ChIP-seq experiments using well-established tools to perform...
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ElixirFM
Functional Arabic Morphology
ElixirFM is a high-level implementation of Functional Arabic Morphology. The core of ElixirFM is written in Haskell, while interfaces in Python and Perl support lexicon editing and other interactions. http://github.com/otakar-smrz/elixir-fm -
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Corbata
CORe microBiome Analysis Tools
Corbata is a set of statistical tools that can be used to analyze the core microbiome across a set of samples. -
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Automalator
State Dependency deconstructor and mapper for C source code.
...Every C source file is an implemention of a state machine. Implicit in the definition of a state machine is a network of dependencies between the states. The Automalator * deconstructs the C code into the core state machine * collates the transactions into the dependency net * generates a diagram-format file with the states and dependencies as the nodes and edges. Pre-requisites * Perl - tested with versions 5.12.3, 5.14.2 and 5.20.2, Windows, Linux and MAC * Get the Automalator by downloading the zip, or checking out or exporting the SVN trunk * copy the source code of interest into "project.c" * windows - double-click "src2map.bat" * linux & MAC - navigate the command line to the "project" folder, then run "src2map.sh" * open "project.gml" file with diagramming software. -
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Bacterial Makeup Explorer
Bacterial Make eXplorer analyses bacterial genome ortholog maps
BMX (Bacterial Makeup eXplorer) computes the core genome size and composition from orthologous maps. -
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GenOO-HTS
A Modern Perl Framework for High Throughput Sequencing analysis
GenOO-HTS [jee-noo] is an open-source; object-oriented Perl framework specifically developed for the design of High Throughput Sequencing (HTS) analysis tools. The primary aim of GenOO-HTS is to make simple HTS analyses easy and complicated analyses possible. GenOO-HTS models biological entities into Perl objects and provides relevant attributes and methods that allow for the manipulation of high throughput sequencing data. Using GenOO-HTS as a core development module reduces the overhead... -
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Opensource Home Automation software suite. Includes multiple xPL applications, a core controller and UI
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CDNsim is a GNU/LINUX simulation tool for CDNs, written in C++ (core) and python (GUI wizard). It models: redirection policies, cache policies, TCP/IP, batch simulations, statistics extraction and more. CDNsim is uses the OMNet++ library
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GTdb - Modular genotype database for all markers. The database has core which captures information common to different variation measurements and extensions to method and instrument specific data.
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Maiden-core is a Linux kernel robotics API module, extensible in Erc. The Maiden Project also documents and develops the Maiden architecture for mobile robots, a set of (optional) designs and standards for robots using the Maiden-core API.
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aIRCraft is a Small and Fast pluggable perl-irc-robot designed to provide both certain services like Weather forecast, definition databases and a stable botnet core. Since it is highly pluggable modules can be written very easily.
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