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Science & Engineering Software

  • 2018 Network Intelligence Planning Guide 2018 Network Intelligence Planning Guide Icon
    2018 Network Intelligence Planning Guide Icon

    Get insights on net neutrality, cloud readiness, security and WAN transformation.

    Networking is becoming cloudier, hybrid and more Internet-centric. IT managers now own user experience, whether they own the networks or not. Get our latest ebook to learn how network intelligence will help you adapt to a quickly changing Internet-centric environment.
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  • Use DigitalOcean to Build, Deploy & Scale Web Apps Use DigitalOcean to Build, Deploy & Scale Web Apps Icon
    Use DigitalOcean to Build, Deploy & Scale Web Apps Icon

    The ease and simplicity of DigitalOcean gives developers more time to build and innovate for their customers.

    Thousands of businesses and developers around the world use DigitalOcean to easily deploy, manage, and scale applications of any size with less infrastructure friction. Go from one to a thousand virtual servers in seconds. Also, we continue to add hundreds of in-depth tutorials to our documentation library and have an active online community to get the support you need to succeed.
  • StarkOX Icon

    StarkOX

    Open Source Robot Operating System

    StarkOX, the first universal Open Source AI Robot Operating System. It provides easy to use hardware abstraction and commonly-used functionality. Furthermore, strong cognitive functions, voice and pattern detection together with a new powerful scripting language provide possibilities to create and share abstract behavior patterns.

    Downloads: 202 This Week Last Update: See Project
  • Portable Linux Icon

    Portable Linux

    Portable Ubuntu Linux for Scientific Computing

    Released August 22, 2013 Lubuntu Blends: Biochemistry 13.04 (Raring) v5.44 Linux Kernel Image 3.8.0-29 Lubuntu Blends are pre-installed Wubi disk image remixes of Ubuntu and Debian Science meta packages, A custom boot loader allows installations to be copied and automatically booted from most external or USB flash drives. Once up and running, use earlier Lubuntu Remix README instructions here until documentation is updated. https://sourceforge.net/projects/portable-linux/files/ Installation 1. Download the Wubi installer http://releases.ubuntu.com/saucy/wubi.exe 2. Install any flavor of Ubuntu. 3. Swap out the root.disk with the ones provided here. Overview LAMP stack running on localhost (127.0.0.1). Scientific, productivity & media packages include R (Rattle Data Miner), GridEngine, Condor, cooperative computing tools, WINE, LibreOffice, Evolution, Clinica, Neuro Debian Desktop, PsycoPy, OpenVibe, 3DSlicer, Paraview, Openshot. Cheers, Gregory Remington

  • Seqping

    Gene Prediction Pipeline for Plant Genomes

    Gene Prediction Pipeline for Plant Genomes using Self-Training Gene Models and Transcriptomic Data

    Downloads: 54 This Week Last Update: See Project
  • MToolBox

    A bioinformatics pipeline to analyze mtDNA from NGS data

    MToolBox is a highly automated bioinformatics pipeline to reconstruct and analyze human mitochondrial DNA from high throughput sequencing data. MToolBox includes an updated computational strategy to assemble mitochondrial genomes from Whole Exome and/or Genome Sequencing (PMID: 22669646) and an improved fragment-classify tool (PMID:22139932) for haplogroup assignment, functional and prioritization analysis of mitochondrial variants. MToolBox provides pathogenicity scores, profiles of genome variability and disease-associations for mitochondrial variants. MToolBox provides also a Variant Call Format file (version 4.0) featuring, for the first time, allele-specific heteroplasmy. Please, check out the most recent updates of the source code with the Github repository of MToolBox: https://github.com/mitoNGS/MToolBox or visit the Web version of MToolBox @ MSeqDR: https://mseqdr.org/mtoolbox.php

    Downloads: 38 This Week Last Update: See Project
  • p3d Icon

    p3d

    General data-reduction tool for fiber-fed integral-field spectrographs

    p3d is a general data-reduction tool for use with fiber-fed integral-field spectrographs (IFSs); although, the spectrum viewer works with spectrum data cubes of any origin. The tool is built about the proprietary software IDL (Harris/EXELIS; see http://www.harrisgeospatial.com), but can be used without any license. Most slowly running loops are implemented in parallelized C (OpenMP).

  • Monitor your Cisco ASA like an expert Monitor your Cisco ASA like an expert Icon
    Monitor your Cisco ASA like an expert Icon

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  • SPELL Icon

    SPELL

    Satellite Procedure Execution Language and Library

    SPELL is a framework composed of an integrated environment for the development and execution of satellite automated procedures. It is capable of running any procedure via different Ground Control System and for any spacecraft. The goal of SPELL is to have a powerful and readable automation language, which can be shared across Satellite Operators and Satellite Manufacturers. If we all use the same language, the cost and the risk associated with automated procedures will go down! SPELL facilitates the automation of satellite operations, allowing satellite procedures to be run in a highly repeatable and reliable manner. User manuals provide guidance on the correct use and steps to integrate the software into their existing ground control systems via the well-defined programming interface. SPELL consists of five integral applications which users can use as a complete software suite or as individual standalone applications. Start!: https://sourceforge.net/p/spell-sat/wiki/Home/

    Downloads: 7 This Week Last Update: See Project
  • gsl-pt_BR

    manual da gsl em pt-BR

    Manual da Gnu Scientific Library em português do Brasil. O manual possui código fonte no formato texinfo.

  • Gaussian Extract

    Gaussian extract is a bash script extracting several informations from Gaussian(R) .log files.

  • Gschem-finalizer

    Integrator for gEDA (GPL EDA) Suites & Bridge gEDA to Kicad

    Gschem-finalizer is free & open source EDA-tool to finalize gEDA-gschem schematic project. It integrates several programs such gEDA (gschem, gnetlist, and NG-SPICE), GNU a2ps, psutils, and some basic GNU/Linux or UNIX programs. This software is written based PHP language & running on GNU/LINUX OS variants & UNIX OS variants. Features: 1. Generate netlists (SPICE 3F5, GEDA PCB, Kicad PCB/EESchema) 2. Pre-testing (additional DRC) 3. Result multi-pages in single file PDF output compilation with operating point description. 4. "Smartly" generate SPICE netlist for analog, digital, or mixed analysis simulation. 5. Generate Kicad netlist from gEDA schematic format. & More... See the manual for more info (http://gschemfinalizer.sourceforge.net/) The example of results are available at http://sourceforge.net/projects/matrix14freeamp/files/

    Downloads: 3 This Week Last Update: See Project
  • Uplug corpus tools

    Various tools for creating annotated parallel corpora including pre-trained tagging and parsing models for various languages, sentence alignment tools and word alignment tools. Uplug also includes a web-based interface for interactive sentence and word alignment and scripts for indexing and querying parallel corpora using the Corpus Work Bench CWB. Download 'uplug-main' first and then add other packages.

  • Detect and respond to threats with SolarWinds® Log & Event Manager. Detect and respond to threats with SolarWinds® Log & Event Manager. Icon
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  • ADOMA Icon

    ADOMA

    ADOMA stands for: Alternative Display Of Multiple Alignment. ADOMA can create four different displays of a multiple sequence alignment: a ClustalW alignment in HTML format, a simplified ClustalW alignment in HTML and/or txt format and a colored ClustalW alignment in HTML format. For examples of these outputfiles check the screenshots. ADOMA uses ClustalW to create the multiple alignment from DNA or protein sequences and displays them slightly different than the normal output of ClustalW. ADOMA is a commandline program that can easily be used in pipelines. For more information check the README.md in the Files section. How to cite ADOMA: Zaal, D. and Nota, B. (2016), ADOMA: A Command Line Tool to Modify ClustalW Multiple Alignment Output. Mol. Inf., 35: 42–44. doi: 10.1002/minf.201500083 http://onlinelibrary.wiley.com/doi/10.1002/minf.201500083/abstract

    Downloads: 2 This Week Last Update: See Project
  • Malware Analysis Network in Taiwan

    MAN in Taiwan, MiT

    Malware Analysis Network in Taiwan <Man in Taiwan, MiT> Welcome to contact us (TonTon@TWMAN.ORG) if you are interested in collaborating with us. This project is open source and distributed under the GNU General Public License version 3. Please feel free to add to or modify this source and propose changes or new converters. Developer & Copyrighted by : TonTon Hsien-De Huang Prompter: Jazz Yao-Tsung Wang, Figaro Chen-Ho Yang | Logo Desinger:Temaki Guo Community on Google+:http://X.TWMAN.ORG/Community/ SourceForge: https://sourceforge.net/projects/twmanplus/files/ FaceBook: https://www.facebook.com/TWMAN.PLUS

    Downloads: 1 This Week Last Update: See Project
  • iTagPlot

    A computation and interactive visualization of tag density

    iTagPlot is a computation and interactive visualization of tag density distribution for next generation sequencing data.

    Downloads: 1 This Week Last Update: See Project
  • ALEXA-Seq

    ALEXA-Seq is a method for using massively parallel paired-end transcriptome sequencing for 'alternative expression analysis'.

    Downloads: 0 This Week Last Update: See Project
  • AL_library

    This library would be a collection of useful algorithm for math e physics programs. It will be developed in C language

    Downloads: 0 This Week Last Update: See Project
  • ARaC

    ARaC (Almost Random Cipher) is (or will become) a 512bit cipher. The ARaC suite is a C program which can encrypt/decrypt files and streams. The cipher itself cannot be download on SF due to US export laws, check http://arac-suite.sourceforge.net !

    Downloads: 0 This Week Last Update: See Project
  • Affisix Icon

    Affisix

    Affisix is a program for automatic recognition of prefixes. It takes large amount of words and according to the user setting it tries to determine which segments of these words are prefixes.

    Downloads: 0 This Week Last Update: See Project
  • Allelome.PRO

    A pipeline to define allele-specific genomic features

    Detecting allelic biases from high-throughput sequencing data requires an approach that maximises sensitivity while minimizing false positives. Here we present Allelome.PRO, an automated userfriendly bioinformatics pipeline, which uses high-throughput sequencing data from reciprocal crosses of two genetically distinct mouse strains to detect allele-specific expression and chromatin modifications. Allelome.PRO extends approaches used in previous studies that exclusively analysed imprinted expression to give a complete picture of the “allelome” by automatically categorising the allelic expression of all genes in a given cell type into imprinted, strain-biased biallelic or noninformative. Allelome.PRO offers increased sensitivity to analyse lowly expressed transcripts, together with a robust false discovery rate empirically calculated from variation in the sequencing data.

    Downloads: 0 This Week Last Update: See Project
  • BAIO Icon

    BAIO

    Bioinformatics Artificial Intelligence Order

    A smart interface of AI that will interrogate and complete your bioinformatics data analysis for you. Download and start your instance of BAIO to join the network of great bioinformatics Minds.

    Downloads: 0 This Week Last Update: See Project
  • Bioscape

    Bioscape is a proposed collaborative framework for the generation consolidation and exchange of molecular biological text mining results.

    Downloads: 0 This Week Last Update: See Project
  • CTF-SAM-OUT, superposing CTF SAM and MRI

    A tool to register and superpose CTF MEG SAM(g2) result and MRI image into one gray-level image.

    Downloads: 0 This Week Last Update: See Project
  • DHC-MEGE

    DNase Hypersensitivity Connectivity Motif Enrichment in GeneExpression

    What does it do? DHC-MEGE is a program designed for the identification of functional long-range cis elements such as enhancers from gene expression data. How does it work? DHC-MEGE takes a list of up- and down-regulated genes and extracts regions from a chromatin connectivity map which are predicted to physically associate with those genes. It then searches for over-represented sequence motifs and then reports instances of those motifs throughout the genome. What is the input? You need a list of up genes, down genes, a DNase hypersensitivity connectivity map (BED8 format) and genome sequence (fasta format). What is the output? The main output is the GMT file, which is a list of gene lists which details the occurance of sequence motifs across the hypersensitive regions of the genome. How can I use the output file? GMT files can be used in gene set enrichment analysis of the array/mRNA-seq experiment. More info in the manual.

    Downloads: 0 This Week Last Update: See Project
  • Forerunner X01 Toolkit Icon

    Forerunner X01 Toolkit

    ForeRunner X01 toolkit provides an easy access to Forerunner 201/301/305/305E GPS-units. There are multiple command line tools to read data from GPS into database and tools to export data in different formats like gpx and tcx.

  • Hemera - Intelligent System

    Hemera is a Virtual Intelligent System aggregating some more advanced Artificial Intelligence Technologies (speech, speech recognition, form recognition, motion recognition ...); with applications in daily tasks, domotics and robotics ...

    Downloads: 0 This Week Last Update: See Project
  • NGC to Spanish Wikipedia Icon

    NGC to Spanish Wikipedia

    Programa para automatizar la creación artículos en Wikipedia en español sobre objetos astronómicos del catálogo NGC. Rellena los campos automáticamente a partir de diversas bases de datos en línea, generando un código base sobre el que trabaj

    Downloads: 0 This Week Last Update: See Project
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