Search Results for "/storage/emulated/0/android/data/net.sourceforge.uiq3.fx603p/files" - Page 13
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Showing 1016 open source projects for "/storage/emulated/0/android/data/net.sourceforge.uiq3.fx603p/files"
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Run applications fast and securely in a fully managed environmentRun frontend and backend services, batch jobs, deploy websites and applications, and queue processing workloads without the need to manage infrastructure.
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Effortlessly manage macOS, iOS, iPadOS and tvOS devices across multiple clients and locations.Addigy solutions accelerate Apple adoption in any environment.
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ExAM-Exome_Analysis_And_Mining
A whole exome sequencing analysis package and its graphical interface
During the past few years, whole exome sequencing has imposed itself for genetic research, largely due to its use for detection of causative mutations responsible for Mendelian disorders. As a consequence of their power and of the rapidly decreasing cost of these technologies, massive amount of exome sequencing data are generated and becoming available to a broadening community of scientists. However, these data remain difficult to analyze and interpret by the general scientific community, due to the limited bioinformatics resources that are currently freely available for their analysis and the partial information that they provide. Here, we present an interactive and free analysis package, ExAM, dedicated to whole exome sequencing data analysis. ... -
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This is the reference library for ICS (Image Cytometry Standard), an open standard for writing images of any dimensionality and data type to file, together with associated information regarding the recording equipment or recorded subject.
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The MeVisLab Community project provides add-on modules that extend the functionality of the MeVisLab software. The modules are provided and maintained by the MeVisLab developer community and can be compiled with the public MeVisLab SDK.
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Identifiers.org is a system providing resolvable and persistent identifiers, in the form of URIs, used to identify data for the scientific community, with a current focus on the Life Sciences domain. The provision of resolvable identifiers (URLs) fits well with the Semantic Web vision, and the Linked Data initiative. The resolving services of Identifiers.org rely on the information stored in the MIRIAM Registry.
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Cycloid: Hybrid Cloud DevOps collaboration platformEnable your developers to do their best work and increase time-to-market speed with a leading DevOps and Hybrid Cloud platform.
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LightSpMV
lightweight GPU-based sparse matrix-vector multiplication (SpMV)
LightSpMV is a novel CUDA-compatible sparse matrix-vector multiplication (SpMv) algorithm using the standard compressed sparse row (CSR) storage format. We have evaluated LightSpMV using various sparse matrices and further compared it to the CSR-based SpMV subprograms in the state-of-the-art CUSP and cuSPARSE. Performance evaluation reveals that on a single Tesla K40c GPU, LightSpMV is superior to both CUSP and cuSPARSE, with a speedup of up to 2.60 and 2.63 over CUSP, and up to 1.93 and 1.79 over cuSPARSE for single and double precision, respectively. -
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iMet-Q (intelligent Metabolomic Quantitation) is an automated tool with friendly user interfaces for quantifying metabolites in full-scan liquid chromatography-mass spectrometry (LC-MS) data. It has a complete quantitation procedure for noise removal, peak detection and peak alignment. In addition to accurate quantitation, iMet-Q provides the charge states and isotope ratios of detected compounds. It accepts input data in netCDF, mzXML, and mzML format and exports quantitation results in csv and txt format. The software source code is freely available under the license of GPL2.
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Flexbar
flexible barcode and adapter removal for sequencing platforms
Flexbar moved to https://github.com/seqan/flexbar The program Flexbar processes high-throughput sequencing data efficiently. It demultiplexes barcoded runs and removes adapter sequences. Moreover, trimming and filtering features are provided. Flexbar supports next-generation sequencing data in fasta and fastq format, e.g. from the Illumina platform. Reference: Matthias Dodt, Johannes T. Roehr, Rina Ahmed, Christoph Dieterich: Flexbar — flexible barcode and adapter processing for next-generation sequencing platforms. ... -
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VarScan
Variant detection in next-generation sequencing data
Variant detection in massively parallel sequencing. For one sample, calls SNPs, indels, and consensus genotypes. For tumor-normal pairs, further classifies each variant as Germline, Somatic, or LOH, and also detects somatic copy number changes. THE LATEST VERSION IS AVAILABLE ON GITHUB -
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SoftSV
Calling structural variations. The soft way.
SoftSV is a tool for the detection of small and large deletions, inversions, tandem duplications and translocations from paired-end sequencing data. It uses aberrant paired-end mappings to determine approximative breakpoint regions and refines the breakpoints by analysing soft-clipped sequences for potential split-reads. For more information about the algorithm and an evaluation, have a look at this publication: "Robust and exact structural variation detection with paired-end and soft-clipped alignments: SoftSV compared with eight algorithms" (PMID 25998133) Please cite this artilce if you used SoftSV in your publication. -
Teradata VantageCloud Enterprise is a data analytics platform for performing advanced analytics on AWS, Azure, and Google Cloud.VantageCloud is the complete cloud analytics and data platform, delivering harmonized data and Trusted AI for all. Built for performance, flexibility, and openness, VantageCloud enables organizations to unify diverse data sources, run complex analytics, and deploy AI models—all within a single, scalable platform.
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Toolkit for processing genetic data. Currently supports (command-line): Half-IBD (Identity by descent) aka HIRs - between 2 or any number of files (in distances and cM); RAW2PED, PED2RAW conversions; regions of homozygousity and other converters.
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FMFilter
Fast Model Based Variant Filtering Tool
...It has the capability to filter with control individuals and eliminate the majority of the false alarms specific to a population. It requires negligible memory which enables to handle very large variant files in ordinary computers. -
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bsclient
An interactive FTP-like command-line BaseSpace download client
bsclient is an interactive text-based client for browsing and downloading files from Illumina BaseSpace. It has a simple interface simliar to FTP and can be used to easily download files onto a remote server or in any situation when the web-based interface is not accessible or desirable. Please note that current development on this project has moved to GitHub: https://github.com/jvolkening/bsclient -
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...Prokaryotic Proteogenomic Tool(PPT) is developed as a part of GenoSuite framework. PPT is for finding novel translations in prokaryotic genomes and is dependent on Mass Spectrometry based proteomics data and related genome sequence. Some Key features of the tool are.... (1) Configured for 4 open source algorithms to perform database searching for peptide identification. Any combination of the 4 algorithm can be chosen. (2) Lists out the genome search specific peptides(Novel peptides). (3) Spectral matches can be visualized for the quality assessment...
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swathTUNER
Software tool for optimizing data-independent acquisition methods
SwathTUNER combines usability and flexibility for the selection of different SWATH data acquisition strategies to address the requirements of multiple experimental conditions. It can be used for any acquisition instrument, including FT-based analyzers, where the same principles with respect to variable precursor isolation windows apply. Fixed and variable windows based on equalizing the distribution of either the precursor ions or the total ion current within each window can be created. -
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TinkerCell is a software for synthetic biology. The visual interface allows users to design networks using various biological "parts". Models can include modules and multiple cells. Users can program new functions using C or Python. www.tinkercell.
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A set of tools for working with VCF files, such as those generated by the 1000 Genomes Project. This project is migrating to github: https://vcftools.github.io/
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SPA
SPA: a short peptide assembler for metagenomic data
...A nucleotide assembly-based strategy does not fare much better since metagenomic assemblies are typically very fragmented and also leave a large fraction of reads unassembled. We present a method for reconstructing complete protein sequences directly from NGS metagenomic data. Our framework is based on a novel Short Peptide Assembler (SPA) that assembles protein sequences from their constituent peptide fragments identified on short reads. We also present a new implementation of SPA based on suffix array (SFA-SPA) which runs significantly faster than SPA. Youngik Yang, Cuncong Zhong, and Shibu Yooseph* J. ... -
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LDhat
Estimate Recombination Rates from Population Genetic Data
LDhat is a package written in the C language for the analysis of recombination rates from population genetic data. This package has migrated to github: https://github.com/auton1/LDhat -
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MDA
Molecular Dynamics Analyzer (MDA)
...The particle fitting routine is provided by an external library written in C. The results can be exported into the Matlab Workspace or the trackID, frameID and xyz coordinates are saved into files. -
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Library of various Java Swing user interface components, with emphasis on views and editors for complex data structures, like collections, sets, lists, maps, graphs, and matrices.
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This is a sophisticated & integrated simulation and analysis environment for dynamical systems models of physical systems (ODEs, DAEs, maps, and hybrid systems). It supports symbolic math, optimization, continuation, data analysis, biological apps...
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TRiDaS is a universal data exchange standard for the dendrochronology community. This project contains the data standard itself as well as libraries and tools useful for reading, writing and converting dendro data files.
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ConvertMAS
ConvertMAS converts Chemical File Formats mol, mol2 and sdf.
ConvertMAS - molecule converter; use to convert Chemical File Formats. It works on mol, mol2 and sdf files. It converts single file to respective formats. It will split sdf file with multiple molecules into seperate single files of any desired format. Also ConvertMAS creates sdf files from joining of mol, mol2 and sdf files. This is stand alone application; hence no need of internet connectivity to get results. It will generate output files in less time. ... -
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ESBTL (Easy Structural Biology Template Library) is a lightweight C++ library that allows the handling of PDB data and provides a data structure suitable for geometric analysis and advanced constructions.
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PRIMUS
Pedigree Reconstruction and Identification of a Maximum Unrelated Set
NEW: Download new version with Pedigree Reconstruction at primus.gs.washington.edu This versions is outdated and incomplete. Please visit the new website for the complete version of PRIMUS. We present a method adapted from graph theory that always identifies the maximum set of unrelated individuals in any dataset, and allows weighting parameters to be utilized in unrelated sample selection. PRIMUS reads in user-generated IBD estimates and outputs the maximum possible set of unrelated...
