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Showing 67 open source projects for "create"
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Full-stack observability with actually useful AI | Grafana CloudBuilt on open standards like Prometheus and OpenTelemetry, Grafana Cloud includes Kubernetes Monitoring, Application Observability, Incident Response, plus the AI-powered Grafana Assistant. Get started with our generous free tier today.
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Enterprise-grade ITSM, for every businessFreshservice is an intuitive, AI-powered platform that helps IT, operations, and business teams deliver exceptional service without the usual complexity. Automate repetitive tasks, resolve issues faster, and provide seamless support across the organization. From managing incidents and assets to driving smarter decisions, Freshservice makes it easy to stay efficient and scale with confidence.
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STRIKER-GUI
Refine the spectral library to enhance its completeness and coverage.
STRIKER is a tool for correcting spectra with missing or incorrect adduct annotations. It also enables efficient construction of an HMDB-based spectral library and extraction of sublibraries from large spectral libraries. -
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miRDeep*
MiRDeep*
Please cite: An, J., Lai, J., Lehman, M.L. and Nelson, C.C. (2013) miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res, 41, 727-737. We will create index for you if you tell us your interested species (j.an@qut.edu.au). download command line version "MDS_command_line_Vxx.zip" clicking "Browse All Files" please find miRPlant in sourceforge for plant miRNA prediction. -
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RAFTS³G
Rapid Alignment Free Tool for Sequences Similarity Search to Groups
| RAFTS3G - Rapid Alignment Free Tool for Sequences Similarity Search to Groups| % Clustering algoritm to create homology clusters based on RAFTS3 (VIALLE, R. A.) % More informations about RAFTS3 in: https://sourceforge.net/projects/rafts3/ % Professional and Technical Education Sector from the Federal University of Paraná - Bioinformatic Lab. % Federal of Paraná University - UFPR % Dr. Alcides Vieira Arco-verde street, 1225 % CEP: 81520-260 Jardim das Américas % Curitiba – PR % Brazil % % Developers and colaborators: % Roberto T. ... -
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This project moved to GitHub in 2021 and is available at: https://cbrinkrolf.github.io/VANESA/ This tool is a platform-independent software to create individual pathways and to examine biological networks of distributed, heterogeneous data sources, e.g. KEGG, BRENDA. VANESA also offers Petri net modeling of extended hybrid Petri nets which can be also simulated using the OpenModelica framework.
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Try Google Cloud Risk-Free With $300 in CreditUse your credit across every product. Compute, storage, AI, analytics. When it runs out, 20+ products stay free. You only pay when you choose to.
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Cell Paint
cellPAINT allows users to create living illustrations of biology.
cellPAINT is a free-form painting app that allows users to create their own living illustrations of cellular landscapes. There are currently several prototypes available: --cellPAINT_coronavirus includes a newly-redesigned user interface, and molecular building blocks for coronavirus, blood plasma, and a simple human cell --cellPAINT_exo includes hand-painted sprites created by Julia Jimenez during an internship, and also allows input of custom sprites through Mesoscope --cellPAINT_VR is a 3D virtual reality version of cellPAINT, with molecular building blocks for a red blood cell cytoskeleton --cellPAINT_2D is the initial alpha release of cellPAINT, with building blocks for HIV, blood plasma, and a human T-cell. ... -
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PINCIS
PINCIS.pl is a Perl bioinf. script to analyze PICS data
...Thus, the script filters given peptide lists for library peptides (generated by the digestion protease in the proteomics workflow rather then the protease of interest) and prints out lists of inferred N- and C-terminal cleavage window extensions which can be concurrently used to generate cleavage specificity visualizations like the iceLogo (https://iomics.ugent.be/icelogoserver/create). -
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DigiOz .NET Portal
ASP.NET MVC Based Portal CMS System to Create an Instant Website
DigiOz .NET Portal is a FREE web based portal CMS system written in ASP.NET MVC 5 in C# which uses a Microsoft SQL Database to allows webmasters to setup and customize an instant website for either business or personal use. List of Technologies used: - ASP.NET MVC 5 - Microsoft SQL Server - Bootstrap - HTML 5 - jQuery Demo Site: http://digioznetportal.digioz.net/ Source Code: https://sourceforge.net/p/digioznetportal/codenew/ci/master/tree/ Installation Instructions:... -
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CusVarDB
CusVarDB generated variant protein database from NGS-datasets
...The program performs mainly 4 modules 1. Align the datasets with reference database 2. Perform the variant calling using Genome Analysis Toolkit (GATK) 3. Annotate the variant using ANNOVAR 4. Create the variant protein database Apart from the main modules, the program also supports additional functions such as 1. Download the SRA 2. Convert the SRA file to fastq file format 3. Download the annotation (ANNOVAR) database and Dry-run concept to customize the commands Executables are available at http://bioinfo-tools.com/Downloads/CusVarDB/V1.0.0/ Test dataset is available at http://bioinfo-tools.com/Downloads/CusVarDB/V1.0.0/test_dataset.rar -
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mirplant
miRPlant: An Integrated Tool for Identification of Plant miRNA
please cite: An J, Lai J, Sajjanhar A, Lehman ML, Nelson CC: miRPlant: an integrated tool for identification of plant miRNA from RNA sequencing data. BMC bioinformatics 2014, 15(1):275. We will create index for you if you tell us your interested plants (j.an@qut.edu.au). -
Go from Code to Production URL in SecondsSkip the Kubernetes configs. Cloud Run handles HTTPS, scaling, and infrastructure automatically. Two million requests free per month.
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...New project page: https://github.com/DiseaseOntology Disease Ontology is a stuctured controlled vocabulary originally based upon and mapped to medical billing codes. The goal of this ontology is to create a comprehensive hierachical controlled vocabulary to represent subsumptive disease relationships.
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Niche Analyst (NicheA) was developed based on the BAM framework which allows users to create virtual spaces and virtual species, and to analyze ecological niches in both multivariate environmental and geographic spaces, linking views of the niche in the two spaces. The unique functionality in NicheA, not available in other software programs, is estimating Grinnellian niches of species based on environmental variables and occurrence records, but with a clear focus on fundamental ecological niches. ...
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BABA stands for Basic-Algorithms-of-Bioinformatics Applet. This project aims to create a set of bioinformatic algorithms presented didactically. The algorithms available at the moment are: Needleman&Wunsch, Smith&Waterman, Four Russians and Nussinov.
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Grinder is a versatile open-source bioinformatic tool to create simulated omic shotgun and amplicon sequence libraries for all main sequencing platforms.
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HeatmapGenerator is a graphical user interface software program written in C++, R, and OpenGL to create customized gene expression heatmaps from RNA-seq and microarray data in medical research. HeatmapGenerator can also be used to make heatmaps in a variety of other non-medical fields. HeatmapGenerator is peer-reviewed published software (http://www.scfbm.org/content/9/1/30). Please cite: [Khomtchouk et al.: "HeatmapGenerator: High performance RNAseq and microarray visualization software suite to examine differential gene expression levels using an R and C++ hybrid computational pipeline." ...
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Sample Tracking
Rediscover the Simplicity http://www.atgclabs.com/
...FWA can track all of your research, development and process scale-up data in a single data storage platform, providing a organized and time effective means of keeping inventory and tracking samples on a large scale, while integrating sample storage and data storage on one easy-to-use format, minimizing confusion and increasing overall efficiency. With FWA, storage of samples is simple and systematic by entering them into the program according to their physical arrangements we create virtual containers matching these configurations and dimensions. -
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Lab Storage
Rediscover the Simplicity http://www.atgclabs.com/
...FWA can track all of your research, development and process scale-up data in a single data storage platform, providing a organized and time effective means of keeping inventory and tracking samples on a large scale, while integrating sample storage and data storage on one easy-to-use format, minimizing confusion and increasing overall efficiency. With FWA, storage of samples is simple and systematic by entering them into the program according to their physical arrangements we create virtual containers matching these configurations and dimensions. -
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Animal Studies
Animal Studies
...Genetic and physiological data can be entered either manually or automatically when automated genotyping and analytical phenotypic assays are used. Animal Studies application is web-based and completely customizable, with Animal Studies it is very simple to create, change and distribute data flows using an iterative approach. Animal Studies puts all the information right at your fingertips. If you are experiencing problems using the Animal Studies System then please report your problem to support@atgclabs.com -
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Lab Studies
Rediscover the Simplicity http://www.atgclabs.com/
...Genetic and physiological data can be entered either manually or automatically when automated genotyping and analytical phenotypic assays are used. Animal Studies application is web-based and completely customizable, with Animal Studies it is very simple to create, change and distribute data flows using an iterative approach. Animal Studies puts all the information right at your fingertips. The Animal Studies module provides storage for the genotype information, organise genotyping protocols and archive genetic marker information, including for example PCR conditions and results. -
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Lab Processes
Rediscover the Simplicity http://www.atgclabs.com/
...Genetic and physiological data can be entered either manually or automatically when automated genotyping and analytical phenotypic assays are used. The Lab Processes application is web-based and completely customizable, with Animal Studies it is very simple to create, change and distribute data flows using an iterative approach. Animal Studies puts all the information right at your fingertips. If you are experiencing problems using Lab Processes then please report your problem to support@atgclabs.com -
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Phanto_maJ
build three dimensional structure
...In addition, adding a new "basic form" consiste for advanced users to write two short java file ( one describing the new form geometry and the other transcripting this geometry in java3D world ). PhantomaJ is the indispensable tool for who want to create phantom bank of simply an unique complexe structure very easily. -
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FASTQSim
NGS data characterization and in silico read generation
...FASTQSim is sequencing platform-independent, and computes distributions of read length, quality scores, indel rates, single point mutation rates, indel size, and similar statistics for any sequencing platform. To create training or testing datasets, FASTQSim has the ability to convert target sequences into in silico reads with matching error profiles. FASTQsim allows the user to simulate individual read datasets that can be used as standardized test scenarios for planning sequencing projects or for benchmarking metagenomic software. In this regard, in silico datasets generated with the FASTQsim tool hold several advantages over natural datasets: they are sequencing platform independent, extremely well characterized, and less expensive to generate. -
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Glycosylation Microviewer
An application create, simulate and adjust N-linked glycosylation.
Glycosylation Microviewer is an application that create N-linked glycosylation raction network. The model used in the application is based on two significant papers: 1.1997 Pablo Umana, James E.Bailey A Mathematical Model of N-linked Glycoform Biosynthesis. 2.2005 Frederick J.Krambeck, Michael J.Betenbaugh A Mathematical Model of N-linked Glycosylation. The application allow to simulate the network in dynamic form with various ODE solvers(Euler, Runge-Kutta etc). -
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GeneticThesaurus
Annotation of genetic variants in repetitive regions
GeneticThesaurus enables analysis of genetic variation in repetitive regions. See project wiki for details. -
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SysGenSIM is a bioinformatics toolbox to create artificial gene expression datasets by simulating Systems Genetics experiments.
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LipidWrapper
Create lipid-bilayer models of arbitrary geometry.
LATEST VERSION NOW LOCATED AT http://git.durrantlab.com/jdurrant/lipidwrapper As ever larger and more complex biological systems are modeled in silico, approximating physiological lipid bilayers with simple planar models becomes increasingly unrealistic. When building large-scale models of whole subcellular environments, models of lipid membranes with carefully considered, biologically relevant curvature are essential. LipidWrapper, written by Jacob Durrant in the lab of Rommie E. Amaro,...
