RSS 223 projects tagged "Bioinformatics"

No download Website Updated 15 Apr 2014 Wandora

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Pop 209.06
Vit 284.46

Wandora is a general purpose data extraction, management, and publishing application based on Topic Maps and Java. Wandora has a graphical user interface, layered presentation of knowledge, several data storage options, rich data extraction, import and export capabilities, and an embedded HTTP server that enables dynamic publication of Topic Maps. Wandora is well suited for rapid ontology construction and knowledge mashups.

Download No website Updated 14 Apr 2014 Pathomx

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Pop 165.70
Vit 46.12

Pathomx is a workflow-based tool for the analysis of metabolomic and other omics datasets. It is interactive, visual, extensible, intelligent, and free for any use. It lets you dynamically build analysis workflows using the interactive editor. Drag and drop connections between plugin tools to create a complete workflow through which to run your analysis. Data can be loaded and processed automatically, and new approaches tested simply by connecting tools.

No download Website Updated 12 Apr 2014 wunderbar

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Pop 13.60
Vit 2.18

Wunderbar is a program which is able to identify mislabeled samples in genotype data when a few extra independent genotypes are available ("genetic barcoding"). Wunderbar calculates the likelihood that genotype mismatches have occurred by chance. It is capable of reliable and sensitive detection of sample mismatches and swaps even in the presence of numerous genotyping errors and in the presence of linkage disequibrilium between the individual genotypes. It only requires a few SNPs to work well.

No download Website Updated 02 Apr 2014 openModeller

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Pop 180.85
Vit 70.32

openModeller is a C++ framework providing tools and an API for ecological niche modeling using a variety of algorithms. It can be used to predict species potential distribution based on a set of georeferenced occurrence points and a set of environmental layers.

Download Website Updated 17 Mar 2014 LabKey Server

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Pop 108.07
Vit 14.15

LabKey Server is open source software that helps scientists manage, analyze, and share complex datasets. It supports tandem mass spectrometry, flow cytometry, assays for neutralizing antibodies, Luminex, observational studies, and secure, Web-based collaboration. The software is modular, configurable, and customizable. It can be installed in your institution on any modern hardware and operating system. It is designed to integrate with your existing systems, instruments, and work flows, and to be readily adapted by skilled programmers to novel methods of inquiry. The project is under active development by a team of professional software engineers and a community of active contributors. New versions are released about four times per year.

Download Website Updated 17 Feb 2014 SHOGUN

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Pop 359.42
Vit 38.88

SHOGUN is a machine learning toolbox whose focus is on large scale kernel methods and especially on Support Vector Machines (SVM). It provides a generic SVM object interfacing to several different SVM implementations, all making use of the same underlying, efficient kernel implementations. Apart from SVMs and regression, SHOGUN also features a number of linear methods like Linear Discriminant Analysis (LDA), Linear Programming Machine (LPM), (Kernel) Perceptrons, and algorithms to train hidden Markov models. SHOGUN can be used from within C++, Matlab, R, Octave, and Python.

Download Website Updated 14 Feb 2014 Orthanc

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Pop 182.74
Vit 12.53

Orthanc is a lightweight, RESTful DICOM server for health care and medical research.

Download Website Updated 14 Oct 2013 SimThyr

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Pop 45.54
Vit 4.47

SimThyr is a continuous simulation program for pituitary-thyroid feedback control. Applications of this program cover research, including development of hypotheses, and education of students in biology and medicine, nurses, and patients.

Download Website Updated 26 Dec 2012 massXpert mass spectrometry package

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Pop 213.12
Vit 16.63

The massXpert software package is a mass spectrometry environment for linear (bio-)polymers. It inherits all the innovations of GNU polyxmass. It allows the detailed definition of new polymer chemistries in the XpertDef module. These chemistry definitions are then used in the desktop calculator-like mass calculator (XpertCalc) and in the sophisticated polymer sequence editor and (bio-)chemical/mass spectrometric simulations module (XpertEdit). Available simulations include polymer and monomer chemical modifications, polymer sequence cleavage, gas-phase fragmentation, m/z ratio calculations, and more.

Download No website Updated 18 Nov 2012 codonPhyML

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Pop 14.93
Vit 22.68

codonPhyML uses Markovian codon models of evolution in phylogeny reconstruction. Given a set of species characterized by their DNA sequences as input, it will return the phylogenetic tree which best describes their evolutionary relationship.

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Grenouille

An online service for weather data.

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octopress-api

A remote API for administering Octopress instances.