Search Results for "sandbox:/mnt/data/project_plan.pod" - Page 27

BCAR is a library for the associative classification, which denotes "Boosting Class Association Rules". BCAR provides a general tool for classification tasks with various types of input data.

...The idea then is that mutation accrual & genetic drift are the determining factors for "species maturation," not speciation itself. Unfortunately the Catalogue of Life Project, catalogueoflife.org, changed its database format more recently, so this converter only works on older versions of the data. In the last working version of the database, making the assumption that each taxonomic name, no matter what level, refers to an original real species & starting them all as female, over 2 million "species/persons" were generated.

IMP is an automated tool for intron-flanking primer design based off of Expressed Sequence Tags (ESTs). It's intended for use in species with limited to no genomic sequence data available.

SDFCherry is a command-line program that searches for textual matches in molecular structure files of SDF format and outputs the structures that match. Optionally adds a data field to the matched structures, e.g., biological activity. Useful for QSAR.

ARTADE (ARabidopsis Tiling-Array-based Detection of Exons) is a standard tool for the automatic annotation of genome-wide tiling-array data in Arabidopsis. ARTADE is a program originally written by Dr. Tetsuro Toyoda, RIKEN, Japan.

FMR Eyetrack is a SPM plugin that allows to directly estimate the point of gaze from the functional MRI data without the help of a dedicated eye tracker. I am no longer working in this field. If anyone wants to pick up this project, please contact me.

LeafAnalyser has been developed as a fast throughput leaf shape analysis application. It contains features such as automated image processing, data analysis and interactive 2D/3D graphs.

MIVF - Medical Imaging and Visualization Factory, is a framework for medical applications. It supplies a platform, in which image processing and 3D visualization algorithms can be employed as reusable components (functional modules or plugins).

This project supports ASTM E13.15 "Analytical Data Magement" in its work defining AnIML, an XML standard for representing, managing and interchanging analytical chemistry and biology data.

EDGE3 is an open-source, web-based application allowing for the management, storage, analysis, and controlled sharing of transcription-based microarray data generated on the Agilent DNA platform.

This project shows how to integrate NVIDIA CUDA GPU programming API into ITK (Insight Segmentation and Registration Toolkit) library

Decima is a database that was designed to support time-series data mining. It consists of PostgreSQL custom type definition, implementation of GiST index for that type and snowflake database schema.

RF++ is a Random Forest-based classifier. It can classify cluster-correlated non-independent data in a statistically valid fashion. RF++ also identifies important variables (biomarkers) in datasets with large numbers of variables and few subjects.

ChIPOTle is a peak-finding algorithm used to analyze ChIP-chip microarray data

EXtensible Instrument Processing Protocol (XIPP) is used to query, configure, and stream data between XIPP-enabled instruments and personal computers on dedicated instrument networks using UDP packets. Cross-platform, C/C++.

JOELib/JOELib2 is a cheminformatics library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available.

EdgeExpressDB (eeDB) is a federated data abstraction system designed for integrating, interpreting, and visualizing very large biology datasets. It is designed for scaling beyond Petabytes and 10^13 objects. http://fantom.gsc.riken.jp/4/edgeexpress

E-BioFlow enables the scientists to design workflow using three different perspectives: control flow, data flow and resource perspective. The workflow tool is based on the Yawl engine and has support for BioMOBY and WSDL services and Perl and R scripts.

ProgPorts is an administrative and easy user interface to hundreds of proteomics, molecular dynamics, and protein crystallography programs. It is a hybrid of the prog/setup system, developed at Johns Hopkins University, and GNU-Darwin ports system.

VCAKE is a genetic sequence assembler capable of assembling millions of small nucleotide reads even in the presence of sequencing error. This software is currently geared towards de novo assembly of Illumina's Solexa Sequencing data.

TiMAT2 contains tools for low and high level genomic tiling microarray analysis using the Affymetrix, NimbleGen, and Agilent platforms. It is designed for processing single and multi chip data sets from ChIP-Chip, RNA difference, and aCGH experiments.

XMPP Web Services for Java (XWS4J) is an implementation of machine to machine communication over XMPP. The communicated content is encoded in XML, according to customized definitions of input and output in W3C XML Schemata.

The gsuffix library implements serveral algorithms used for enumerative string searches. It incorporates the suffix tree and suffix array data structures as well as some other methods.

Example implementation of recursive BLAST method used for conservative gene orthology detection in whole genome data.

Mac upgraded to OSX, Lepard which do not support os9 anymore. This project is build to help DNA Strider user to get their data out and perform some basic DNA analyze function.