99.99% Uptime for MySQL and PostgreSQL on Google Cloud
Enterprise Plus edition delivers sub-second maintenance downtime and 2x read/write performance. Built for critical apps.
Cloud SQL Enterprise Plus gives you a 99.99% availability SLA with near-zero downtime maintenance—typically under 10 seconds. Get 2x better read/write performance, intelligent data caching, and 35 days of point-in-time recovery. Supports MySQL, PostgreSQL, and SQL Server with built-in vector search for gen AI apps. New customers get $300 in free credit.
Try Cloud SQL Free
Easily Host LLMs and Web Apps on Cloud Run
Run everything from popular models with on-demand NVIDIA L4 GPUs to web apps without infrastructure management.
Run frontend and backend services, batch jobs, host LLMs, and queue processing workloads without the need to manage infrastructure. Cloud Run gives you on-demand GPU access for hosting LLMs and running real-time AI—with 5-second cold starts and automatic scale-to-zero so you only pay for actual usage. New customers get $300 in free credit to start.
COHCAP (City of Hope CpG Island Analysis Pipeline, pronounced "co-cap") is an algorithm to analyze single-nucleotide resolution methylation data (Illumina 450k methylation array, targeted BS-Seq, etc.).
Please note:
1) The SourceForge version of COHCAP is no longer being updated. Please see the GitHub version:
https://github.com/cwarden45/COHCAP
This was the source repository for the Bioconductor version, with some changes after the decision to only provide the code through...
The sourcecode has been migrated and is now hosted on Github: https://github.com/jenetics/jenetics
Jenetics is an advanced Genetic Algorithm, Evolutionary Algorithm and Genetic Programming library, respectively, written in modern day Java. It is designed with a clear separation of the several algorithm concepts, e. g. Gene, Chromosome, Genotype, Phenotype, Population and fitness Function.
As of 2018-06-28, this project has moved to https://github.com/AdamaJava. This copy of the code will remain but all new code updates and releases will be from the new site.
Java code developed by the Australian ICGC team for operating on next-generation sequencing data. This code is currently being maintained and expanded by the QIMR Berghofer Genome Informatics team (http://www.qimrberghofer.edu.au/lab/genome-informatics/)
More details and documentation can be found on the...
Access Google’s most capable multimodal models. Train, test, and deploy AI with 200+ foundation models on one platform.
Vertex AI gives developers access to Gemini 3—Google’s most advanced reasoning and coding model—plus 200+ foundation models including Claude, Llama, and Gemma. Build generative AI apps with Vertex AI Studio, customize with fine-tuning, and deploy to production with enterprise-grade MLOps. New customers get $300 in free credits.
A JAVA GUI for performing the function of Tophat and Cuffdiff
...You can now execute as many mapping jobs as you want with tophat. This program will save the output into separate folders.
An alert email will be sent to your email address when the job is done. (You will need to modify the sourcecode to change the content to meet your special needs)
Run-time information will be displayed in a JAVA output window.
Based on the not-so-successful Pysimony (https://sourceforge.net/projects/pysimony/), the same determined student takes another go at the phylogenetic problem.
Javamony is invoked as follows:
java -jar Javamony.jar [input.fasta] [random / stepwise (starting tree)] [# of bootstraps] [outgroup taxon #1] [outgroup taxon #2] ...
Not meant as a competitive phylogenetic inference program, Javamony is an opportunity for me to acquire the Java language while learning to address and solve...
OpenVista(R) is the open-source version of VistA, an enterprise grade health care information system developed by the U.S. Veterans Affairs and deployed at 1,500 global facilities. OpenVista is a registered trademark of Medsphere Systems Corporation
Parsers for biological data based on scanner generators like Flex (C), Re2c(C), Jflex (Java) and Ifickle (Tcl). This scanner generators are providing easier maintainance, development and higher speed than hand written scanners. Scanner output is SQL.
The Xholon project explores: software as systems of linked nodes, organized hierarchically. The Xholon toolkit supports this back-to-basics approach, and demonstrates practical benefits through examples from numerous domains.
Save up to 91% with Spot VMs and get automatic sustained-use discounts. One free VM per month, plus $300 in credits.
Save on compute costs with Compute Engine. Reduce your batch jobs and workload bill 60-91% with Spot VMs. Compute Engine's committed use offers customers up to 70% savings through sustained use discounts. Plus, you get one free e2-micro VM monthly and $300 credit to start.
DNA sequencing quality values, base calling and trace processing
Tracetuner is a tool for base and quality calling of trace files from DNA sequencing instruments. Originally developed by Paracel, a Celera Business, this code base was released as open source in 2006. TraceTuner was used by Celera to call 30+ million reads from both Drosophila and human genome sequencing projects. In 2000, Applied Biosystems bundled TraceTuner with ABI3700 Genome Analyzers and shipped it to the customers of these capillary electrophoresis sequencers. Later versions of...
Java API for implementing any kind of Genetic Algorithm and Genetic Programming applications quickly and easily. Contains a wide range of ready-to-use GA and GP algorithms and operators to be plugged-in or extended. Includes Tutorials and Examples.
NOTE: The IntAct package is now hosted at google code: http://intact.googlecode.com IntAct is an open source package to store and manipulate molecular interaction data.
Chemical Evaluation Framework (CEF) is a molecular structure based software to assist in hazard assessment. Download requires Java 6 update 1. Sourcecode is contained in jar files. Download contains GSH reactivity plugin.
Manuelito is a Java tool for decrypting posttranslational modification (PTM) patterns of proteins based on MALDI mass spectrometry spectra. It was built for analysing the 'histone code' but it can be applied to any other highly modified protein.
The JChemPaint Applet and Swing Application are Java programs for drawing 2D chemical structures like those found in most chemistry textbooks. It is based on the Chemistry Development Kit (cdk.sf.net). Downloads, tracker, and sourcecode repository can be found on https://jchempaint.github.io
Molevolve is a Java library for running a Genetic Algorithm to model the 3-dimensional structures of peptide chains from amino-acid sequences. Client code can specify its own peptide chain model, fitness functions and GA operations. Requires JDK 1.5.
Sight provides a friendly interface to create and connect agents for bioinformatics. The workflow supports multiple responses to a single request, structure transforms, filters and request history access.Can talk with ordinary http servers (get and post)
Set of Java packages to apply Genetic Algorithms to any kind of problem. Various genetic operators are implemented and an example shows of how the system could be applied to digital circuit evolution.
Sequence studio main package provides classes and interfaces for various kinds of sequence alignment. Differently from regular expressions it computes similarity with two initially unknown strings. Project page provides code generating applet.
Jaybird is java-language based, source & xml & codebyte class inter-converting tool.
You can write your Envolvable Code with it;
You can make your computer write program itself;
You can run program without compiling time;
You can manage source as data
A software framework to support distributed evolutionary software development. It dynamically creates a network of nodes that can run a pre-distributed source code (e.g. artificial lifeforms). The results of the calculation will be sent back to the maste
** IMPORTANT NOTICE ** 10 Feb 2006 Code is being moved to the SMI subversion repository (http://smi-protege.stanford.edu/svn/owl/trunk/) Project will continue to be open source. ProtegeOWL info at: http://protege.stanford.edu/overview/protege-owl.html