Search Results for "binary analysis tool" - Page 35
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Showing 1961 open source projects for "binary analysis tool"
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fcGENE: Genotype format converter
Format converting tool for genotype Data (e.g.PLINK-MACH,MACH-PLINK)
Main application is twofold: first to convert genotype SNP data into formats of different imputation tools like PLINK MACH, IMPUTE, BEAGLE and BIMBBAM, second to transform imputed data into different file formats like PLINK, HAPLOVIEW, EIGENSOFT and SNPTEST. Readable file formats: plink-pedigree (ped and map), plink-raw, plink-dosage, mach , minimac, impute, snptest, beagle and bimbam. Similarly all kinds of imputation of outputs are also accepted. Formats which can be generated by... -
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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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PD_BiochemicalSystemsTheory
A model of Parkinson’s disease using biochemical systems theory
Major pathways involving in Parkinson's disease (PD) such as alphasynuclein aggregation, dopamine synthesis, lewy body formation, tau phosphorylation, parkin, and apoptosis were modeled using stochastic differential equations. Pathways were modeled and simulated using the biochemical pathway visualization program CellDesigner, a modeling tool for gene-regulatory and biochemical networks that support graphical notation and listing of symbols. The model allows a qualitative analysis of PD and a key signalling pathways for evaluating PD treatment conditions relating pathophysiology to molecular concentration changes recorded in experiments. -
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Oyente
An Analysis Tool for Smart Contracts
A container with the required dependencies configured can be found here. The image is however outdated. We are working on pushing the latest image to dockerhub for your convenience. If you experience any issues with this image, please try to build a new docker image by pulling this codebase before open an issue. A collection of the utilities that were developed for the paper are in misc_utils. Use them at your own risk - they have mostly been disposable. This is an improved version of the... -
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MEMBPLUGIN
MEMBPLUGIN: studying membrane complexity in VMD
MEMBPLUGIN is a membrane analysis tool for molecular-dynamics simulations. It is a collection of visual and command-line tools that can be run within the Visual Molecular Dynamics (VMD) environment to analyze biomolecular simulations of lipid bilayers. -
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CRISPRamplicon
A tool for analysis of Genome editing outcomes from sequencing data
...Here, a cost-effective and high-throughput strategy was developed for identifying CRISPR/Cas-induced mutations via CRISPR Amplicon Sequencing (Xie’s lab, http://www.biootools.com/). In particular, we have developed a new bioinformatics tool named CRISPRamplicon, which can be used for analysis of CRISPR/Cas9 genome editing outcomes for high-throughput sequencing data with fast speed. -
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PanOCT
Pan-genome Ortholog Clustering Tool
PanOCT, Pan-genome Ortholog Clustering Tool, is a program written in PERL for pan-genomic analysis of closely related prokaryotic species or strains. Unlike traditional graph-based ortholog detection programs, it uses micro synteny or conserved gene neighborhood (CGN) in addition to homology to accurately place proteins into orthologous clusters. -
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cnn-benchmarks
Benchmarks for popular CNN models
...By simplifying performance evaluation, it helps developers make informed decisions about model design and hardware selection. Overall, cnn-benchmarks is a practical tool for performance analysis in deep learning workflows. -
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BinNavi
BinNavi is a binary analysis IDE that allows to inspect, navigate, etc
BinNavi is a binary analysis IDE - an environment that allows users to inspect, navigate, edit, and annotate control-flow-graphs of disassembled code, do the same for the callgraph of the executable, collect and combine execution traces, and generally keep track of analysis results among a group of analysts. BinNavi uses a commercial third-party graph visualisation library (yFiles) for displaying and laying out graphs. -
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Corpus Toolkit
A text management tool for linguistic purposes...
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CUBiBit
Tool to search binary biclusters on CUDA-enabled GPUs
CUBiBit is a parallel tool to accelerate the search of biclusters on binary datasets using CUDA-enabled GPUs. This data mining procedure is especially useful for gene expression data. This tool receives as input a file with ARFF extension that contais the binary values of m attributes and n samples and returns a file with the biclustering information. It is able to exploit the parallel capabilities of manycore NVIDIA GPUS. -
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safelock
Basic AES files encryption tool
Simple drag & drop file encryption tool. based on python and uses PyCrypto to encrypt the inputted files with AES encryption. Then sqlite database file is generated with a unique key to store the encrypted files and folders in binary blobs for later decryption. -
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swap_digger
swap_digger is a tool used to automate Linux swap analysis
swap_digger is a bash script used to automate Linux swap analysis for post-exploitation or forensics purpose. It automates swap extraction and searches for Linux user credentials, Web form credentials, Web form emails, HTTP basic authentication, WiFi SSID and keys, etc. swap_digger is a tool used to automate Linux swap analysis during post-exploitation or forensics. It automates swap extraction and searches for Linux user credentials, web forms credentials, web forms emails, http basic authentication, Wifi SSID and keys, etc. -
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MethyMer
Design of specific primer combinations for bisulfite sequencing
...It also incorporates TCGA CpG methylation (microarrays) and gene expression (RNA-Seq) data, as well as methylation-expression correlation analysis results for 20 human cancer types. ENCODE genome regions annotation data are also integrated in MethyMer -
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GlycoPAT
Comprehensive, open-source tool for glycoproteomics MS data analysis
GlycoPAT is a modular, open-source MATLAB based toolbox for shotgun mass spectrometry based glycoproteomics data analysis. This program provides a novel platform for the streamlined analysis of traditional LC-MSn based high-throughput experimental data for the identification of site-specific N- and O-linked glycosylation on various proteins. More details are available at https://www.VirtualGlycome.org/glycopat Source code also available at https://github.com/kaichengub/GlycoPAT If... -
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...For more information about execution access the README file. ## FUNCTIONAL AND TAXONOMIC ANALYSIS There is another version of the FUNN-MG pipeline with option of taxonomic analysis of each metabolic pathway identified from the results of the KAIJU tool (Menzelet al., 2016). You can access this version at this address: https://github.com/hscleandro/FUNN-MG
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Rootnav
Software for the reconstruction of complex root architectures
RootNav is a software tool designed to facilitate the reconstruction and quantification of complex root architectures. Semi-automated reconstruction makes the analysis of many images extremely quick and straightforward. Root data can be exported, and then analysed in bulk using the supplied viewer tool. Rootnav is still maintained, so please contact me with issues. 1.8.1 is the last major release. -
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Canvas-2DGC
A user-extensible Freemat based 1DGC and GCxGC data analysis software.
Canvas-2DGC is a user-extensible, Freemat based 1DGC and comprehensive 2DGC (GCxGC) data visualization and processing software. GCxGC-MS data analysis is supported for Agilent GCMS data format. The first goal of this project is to provide a highly intelligent analytical tool for reducing a complex chromatographic data analysis, either 1D or 2D, to just a few simple and intuitive steps. The second goal is to provide a fast and practical way of customizing or extending functionalities by ordinary users through high-level Freemat scripting. ... -
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SSL Logger
Decrypts and logs a process's SSL traffic
ssl_logger is a Python-based tool that decrypts and logs a target process’s SSL/TLS traffic on Linux and macOS. It attaches to a running process by name or PID and hooks SSL_read and SSL_write calls to capture plaintext data flowing through encrypted connections. Output can be streamed to the console with verbose metadata or written to a PCAP file for later analysis in standard tooling. -
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Needle
The iOS Security Testing Framework
Needle is an open-source, modular framework to streamline the process of conducting security assessments of iOS apps. Needle was originally made to work with iOS 9 and iOS 10. Since then, Frida was released and become the defacto tool to use with mobile security assessments. Some common Frida mobile security scripts were later implemented within Needle, as some of these scripts worked better or addressed some issues that were present in Needle's custom tooling. Assessing the security of an... -
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Genome Profiler
a wgMLST analysis tool for bacterial WGS data
Genome Profiler (GeP) is a program to perform whole-genome multilocus sequence typing (wgMLST) analysis for bacterial isolates. Please note that this program is designed to run in Unix-like operating systems such as Mac OS X or Linux. GeP uses conserved gene neighborhoods (CGN) to resolve gene paralogy. This approach allows the differentiation of orthologs from recently duplicated paralogs, which are often indistinguishable by pairwise sequence alignment. For more details, please... -
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HermeneutiX
Your graphical tool for Syntactic/Semantic Structure Analysis of texts
HermeneutiX is a tool for diagramming syntactic and semantic structures of complex (not necessarily foreign-language) texts (e.g. bible or other historical excerpts). HermeneutiX is now part of SciToS (the scientific tool set). Starting with version 2.0.0, HermeneutiX can be found on GitHub. Please check out the release summary: https://github.com/scientific-tool-set/scitos/releases For an introduction, check out this video: https://youtu.be/uQjewyG0Ad8 PS: To run a Java... -
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FORTRAN Unit Test Framework (FRUIT)
FORTRAN Unit Test Framework FRUIT - TDD in FORTRAN
FORTRAN Unit Test Framework, written in FORTRAN 95. So that all FORTRAN features can be tested. FRUIT has assertion, fixture, setup, teardown, report, spec, driver generation. Rake used as build tool. Tutorials at http://fortranxunit.wiki.sourceforge.net The core testing part is in FORTRAN, this part can be used independent of the Ruby codes. The Ruby code is to make fixtures and reports easier. Rake is to build the project elegantly. This project also demonstrate a new way to... -
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360-FAAR Firewall Analysis Audit Repair
360-FAAR Analyze FW1 Cisco Netscreen Policy Offline Using Config/Logs
360-FAAR (Firewall Analysis Audit and Repair) is an offline, command line, firewall policy manipulation tool to filter, compare to logs, merge, translate and output firewall commands for new policies, in Checkpoint dbedit, Cisco ASA or ScreenOS commands, and its one file! Read Policy and Logs for: Checkpoint FW1 (in odumper.csv / logexport format), Netscreen ScreenOS (in get config / syslog format), Cisco ASA (show run / syslog format), 360-FAAR compares firewall policies and uses CIDR and text filters to split rulebases / policies into target sections and identify connectivity for further analysis. 360-FAAR supports, policy to log association, object translation, rulebase reordering and simplification, rule moves and duplicate matching automatically. ...
