Search Results for "binary analysis tool" - Page 12
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Showing 378 open source projects for "binary analysis tool"
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pipasic
pipasic: Protein Abundance Correction in Metaproteomic Data
...These challenges are similar but not identical to the challenges arising in the analysis of metagenomic samples and require specific solutions. pipasic (peptide intensity-weighted proteome abundance similarity correction) is a tool which corrects identification and spectral counting based quantification results using peptide similarity estimation and expression level weighting within a non-negative lasso framework. pipasic has distinct advantages over approaches only regarding unique peptides or aggregating results to the lowest common ancestor. -
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PhyloTrack
PhyloTrack, D3.js and JBrowse for phylogeny and positioning of samples
PhyloTrack is a JavaScript--based software tool that integrates the D3.js library for data visualization with the JBrowse tool for genome browser representation. It requires a phylogenetic tree of the common Newick data format as input, as well as three meta data files for samples, clade-defining nodes and clade color definitions - all in tab delimited format. Functionality within PhyloTrack shows the informative markers at each node in the phylogenetic tree, therefore highlighting... -
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MicroView is a 2D/3D image viewer and analysis tool. It is written in Python and uses VTK for all of its graphical capabilities.
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Ymap - Yeast Mapping Analysis Pipeline
Pipeline for large-scale genome changes analysis of genome datasets.
The active use repository has migrated over to: https://github.com/darrenabbey/ymap The repository here was errantly created with some large binary files included. Attempts to extract the files from the history here have failed. A copy of the history was successfully scrubbed and then hosted at github. -------- Eukaryotic pathogens have complicated and dynamic genomes. To facilitate analysis of copy number variations (CNV), single nucleotide polymorphisms (SNPs), and loss of heterozygosity (LOH) events in Candida albicans, the most common human fungal pathogen, we developed a pipeline for analyzing diverse genome-scale datasets from microarray, deep sequencing, and restriction site associated DNA sequence experiments for clinical and laboratory strains. ... -
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VADER
Lexicon and rule-based sentiment analysis tool
VADER (Valence Aware Dictionary and sEntiment Reasoner) is a lexicon and rule-based sentiment analysis tool designed for analyzing the sentiment of text, particularly in social media and short text formats. It is optimized for quick and accurate analysis of positive, negative, and neutral sentiments. -
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CCH
A genetics tool that identifies genomic regions of shared ancestry
Combinatorial Conflicting Homozygosity (CCH) uses dense Single Nucleotide Polymorphism (SNP) genotypes to identify regions of the genome inherited from a common ancestor among any or all subsets of a group. Analysis is rapid and can identify loci containing genes for dominant traits. CCH is robust to the presence of phenocopies and can detect undisclosed shared common ancestry. The associated publication regarding CCH may be accessed... -
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IncludeGraph
Determine which files get included in source files.
IncludeGraph is a tool written in Python that performs code analysis on a C and C++ source tree. It can determine the inclusion path for a header file as well as provide charts about which headers are the most included ones or which files include the most headers. It also has a limited knowledge of conditional preprocessor constructs by implementing a subset of the functionality of the C preprocessor. -
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DR14 T.meter
Compute the DR14 of a given audio file according to the procedure desc
Introduction to DR14 T.meter DR14 T.meter is a free and opens source command line tool for computing the Dynamic Range of your music according to the procedure used in the off-line meter released by the Pleasurize Music Foundation. This tool is very useful to measure how is loud your music and for understanding that a good quality album always has also a good dynamic, and it's also useful for understanding the effects of the so called loudness war. Dr14 t.meter is released under the... -
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LittleDarwin
Mutation Analysis Framework for Java
Mutation testing has been proven to be a reliable method to estimate the quality of a test suite. Most of current mutation tools require the architecture of their target system to be in a certain way in order to apply the technique; thus making it impossible to use them in complex build environments. LittleDarwin is a mutation testing tool designed primarily with the premise of easy deployment in complex systems; in order to provide mutation testing where other tools fail. -
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Pathomx
Workflow-based data analysis built on IPython
Pathomx is a workflow-based tool for the analysis and visualisation of experimental data. Initially created as a tool for metabolomic data analysis is has been extended and can now be used for any scientific and non-scientific data analysis. -
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cpR Chemical Pathology interface for R
A graphical user interface to R for use in Clinical Chemistry
...It allows the user to perform Passing Bablok, Deming and Linear Regression and to produce high quality images in any file format for publication. The front end is written in Python 3.3 and PyQt4 and the form was designed using Qt4 Designer. The statistical analysis is written in R. The compiled binary was made with cx_freeze. This software is free and open-source. It is released under the GNU Public license and comes with absolutely no warranty. -
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wiki export tool
A tool for exporting Wikipedia data
A simple tool, created in a French project "CoMeRe", for exporting data from all Wikimedia fundation projects, include Wikipedia. To use this, you need prepare two things: Target dump of Wiki Target page name Then, configure the tool with dump path and input the page name, finally just let's it run, you will get the target page. Duration is dependent on size of the dump, and the number of pages. Take care for using option "talk, other talk...", this is now only for french corpora. -
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COV2HTML
A visualization and analysis tool of Bacterial NGS data for Biologists
COV2HTML provides an easy and 'in home' web interface for biologists that allows coverage visualization of the NGS alignment needed for the analysis. It combines two essential processes: (i) MAP2COV, a tool that converts the huge NGS mapping or coverage files into light specific coverage files which contains genetic elements informations. (ii) COV2HTML, a visualization interface allowing a real-time analysis of data with selected criteria. Thus this interface offers a visualization of NGS mapping coverage data (DNA-seq, RNA-seq, ChIP-seq and TSS) performed in different prokaryotic organisms (bacteria, viruses...) or different experimental conditions (mutant versus wild type strains or different growth states…) facilitating studies. -
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TextTools is a freeware corpus linguistics tool developed in Python to aid in research. This program analyzes user-created corpora and displays information about word (token) frequency, n-grams, clusters, collocations, keyword in context (KWIC), and keyness. TextTools is designed to be user-friendly and intuitive and will run natively on Mac OS X.
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NGSbinningpytools
Python tools for binning NGS scaffolds to various genomes.
Next generation sequencing has opened new avenues for sequencing prokaryotes which were difficult or either impossible to culture. Now, it is possible to sequence all organisms present in a metagenomic community. However, a critical problem is to determine the host organism for each genomic fragment present in the dataset. This project provides the computational tools for assigning the organismal identity for each genomic scaffold in the given dataset. For more detailed documentation... -
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Domain Analyzer Security Tool
Finds all the security information for a given domain name
Domain analyzer is a security analysis tool which automatically discovers and reports information about the given domain. Its main purpose is to analyze domains in an unattended way. -
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IMPACT is an integrated multi-read peak calling tool for ChIP-Seq data. IMPACT utilizes multi-reads in calling peaks and provides users with high-confidence peaks. In addition, IMPACT provides a completely integrated pipeline which produces downstream analysis results such as motif discovery and peak-to-gene annotation.
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Source Navigator NG is a source code analysis tool. With it, you can edit your source code, display relationships between classes and functions and members, and display call trees. You can navigate your source code and easily get to declarations or implementations of functions, variables and macros (commonly called "symbols") which helps you discovering and mapping unknown source code for enhancement or maintenance tasks.
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SnowMicroPyn
Python based reader for SnowMicroPen® .pnt measurements
SnowMicroPyn is an opensource reader for SnowMicroPen® files in binary .pnt format. The reader is Python based and published as source code as well as compiled executable for Windows, Linux and Mac. The software is preliminary, thus please report bugs. For further information, please read the Readme.txt in the download section. The SnowMicroPen® (SMP) is developed by the WSL Institute for Snow and Avalanche Research, Davos. The SMP is the first high-resolution snow penetrometer. It is... -
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Encryption with symmetric-key algorithm Kirmah - generate keys with exotic chars - redefine key length - key mark to ensure decryption capabilities - mix data - fast with multiprocessing - possible compression - gui on gtk3 - cli tool - python3 DEPENDENCIES : ======== python3, python-gobject, gobject-introspection, pygtk 3 modes are available to encrypt : ======== - compression (full / disabled or only final step) - random (simulate a random order - based on crypted key - to randomize data) - mix (mix data according to a generated map - based on crypted key - with addition of noise) Process is as follow : ======== encrypt : file > [ compress > ] encrypt > [randomiz data > mix data > compress > ] file.kmh decrypt: file.kmh > [ uncompress > unmix data > unrandomiz data] > decrypt > [uncompress > ] file ======== for encrypt/decrypt large binary files, use the fastest alternative : split/merge
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SPADE
A toolkit for developing and deploying protein structure algorithms.
The Structural Proteomics Application Development Environment is a Python tool kit for developing and deploying bioinformatics applications. Handles graphics, analysis, and modeling of protein sequence and structure. Source and Win installers available. SPADE source code can be cloned from http://www.github.com/deaconjs/SPADE. -
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RDS Surveyor is an RDS/RBDS decoding, monitoring and analysis tool and library. It has migrated to GitHub: https://github.com/ChristopheJacquet/RdsSurveyor/
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Genomic Binding Sites Analyser (BiSA)
Genomic Region Archiving and Binding Sites Analysis (BiSA)
...BiSA can also annotate binding regions of interest with nearby genes. The results of overlap analysis can be imported into the Knowledge Base, allowing them to go into downstream analysis and independent annotation. A Venn diagram tool is also integrated into the software to allow users to visualize overlap results. -
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cuckoo2mist
Malware Instruction Set
The Malware Instruction Set (MIST) is a representation for monitored behavior of malicious software. The representation is optimized for effective and efficient analysis of behavior using data mining and machine learn- ing techniques. It can be obtained automatically during analysis of malware with a behavior monitoring tool or by converting existing behavior reports. The representation is not restricted to a particular monitoring tool and thus can also be used as a meta language to unify behavior reports of different sources. ... -
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Mole
Automatic SQL Injection Exploitation Tool
Mole is an automatic SQL Injection exploitation tool. Only by providing a vulnerable URL and a valid string on the site it can detect the injection and exploit it, either by using the union technique or a boolean query based technique. The Mole uses a command based interface, allowing the user to indicate the action he wants to perform easily. The CLI also provides auto-completion on both commands and command arguments, making the user type as less as possible.
