Science Lab Inventory Order Management
. Science Laboratory Inventory and
Orders Management System: suitable for
school's science laboratories to
manage stored items (chemical and
equipment) and...
Enter
Computer Science Grader Assistant
. Computer Science Grader Assistant is
a software to help teachers and graders
in grading computer science assignments
that has to be compiled and executed. It...
Enter
LSID (Life Science Identifier)
. Life Science Identifier (LSID)
resolution protocol, to locate
biologically significant data over a
network, within middle-ware providing a
client A.P.I. for ...
Enter
Science Lab Inventory Order Management
. Science Laboratory Inventory and
Orders Management System: suitable for
school's science laboratories to
manage stored items (chemical and
equipment) and...
Enter
Dicom Science
. DicomScience is a web based
application server in order to provide
the functionality of Teaching Files
Archiving and Distribution to all DICOM
based PACS Sys...
Enter
AWESOME DATA SCIENCE
. An open source Data Science
repository to learn and apply towards
solving real world problems. This is a
shortcut path to start studying Data
Science. Just f...
Enter
Catania Science Gateway Framework
. Audience: Science/Research,
Education, Developers, Testers. User
interface: Web-based. Programming
Language: JavaScript, JSP, Java.
Categories:Scientific/Eng...
Enter
Political Science: Campaign Simulator
. The Campaign Simulator is an attempt
to statistically model and predict the
outcome of an American presidential
election; several users assume the roles
of c...
Enter
Scientia - The science database
. The idea of Scientia is to have a
place where scripts, info etc can be
downloaded for free. Books are expensive
and lots of good information is spread
all ov...
Enter
Life Science Identifier (LSID) Spec
. Life Science Identifier (LSID)
Specification is a globally unique
identifying scheme for information
resources on the life sciences domain.
It is based on In...
Enter
LSID (Life Science Identifier)
. Life Science Identifier (LSID)
resolution protocol, to locate
biologically significant data over a
network, within middle-ware providing a
client A.P.I. for ...
Enter
Tree of Computer Science
. A set of data for computer science
history (languages, OS, Distro, etc.)
and tools. Audience: Education, System
Administrators. Categories:Database,
Library,...
Enter
Social Science Measurement
. This project aims to develop open
source psychometric data analysis
software, including estimation software
for Rasch and Item Response Theory (IRT)
models f...
Enter
JSci - A science API for Java
. JSci is a set of open source Java
packages. The aim is to encapsulate
scientific methods/principles in the
most natural way possible. As such they
should gre...
Enter
AWESOME DATA SCIENCE
. An open source Data Science
repository to learn and apply towards
solving real world problems. This is a
shortcut path to start studying Data
Science. Just f...
Enter
The Earth Science Markup Language
. ESML is an interchange technology
that utilizes external metadata to allow
applications to plug and play seamlessly
with Earth Science specific datasets in
h...
Enter
Political Science: Campaign Simulator
. The Campaign Simulator is an attempt
to statistically model and predict the
outcome of an American presidential
election; several users assume the roles
of c...
Enter
Scientia - The science database
. The idea of Scientia is to have a
place where scripts, info etc can be
downloaded for free. Books are expensive
and lots of good information is spread
all ov...
Enter
Life Science Identifier (LSID) Spec
. Life Science Identifier (LSID)
Specification is a globally unique
identifying scheme for information
resources on the life sciences domain.
It is based on In...
Enter
Computer Science Tutorials
. This is a collection of tutorial
projects that are used by my computer
science students to learn the ins and
outs of software design and development.
The pri...
Enter
Applied Science
. This is the work of Tim Hill (lead
programmer) and Lashan Dias (lead
artist). Audience: Developers, End
Users/Desktop. Programming Language: C#.
Categories:S...
Enter
Social Science Measurement
. This project aims to develop open
source psychometric data analysis
software, including estimation software
for Rasch and Item Response Theory (IRT)
models f...
Enter
JSci - A science API for Java
. JSci is a set of open source Java
packages. The aim is to encapsulate
scientific methods/principles in the
most natural way possible. As such they
should gre...
Enter
ITB Computer Science Code
. Institute of Technology,
Blanchardstown Computer Science code by
the class of 2007-2011 on course BN104.
In this project we are open sourcing all
of our proj...
Enter
Science Olympiad Scoring System
. This is an Excel based scoring system
for use at Science Olympiad tournaments.
Versions have been in use since 2002 at
tournaments all over the country. It i...
Enter
Science Olympiad Scoring System
. This is an Excel based scoring system
for use at Science Olympiad tournaments.
Versions have been in use since 2002 at
tournaments all over the country. It i...
Enter
PSLab Android App
. Repository for the PSLab Android App
for performing experiments with the
Pocket Science Lab open-hardware
platform. This repository holds the
Android App for...
Enter
MOLGENIS model-driven database platform
. MOLGENIS can be used to generate
databases for life science experiments
(micrroarray, mass spectrometry,
genomics) having a web user interface,
csv exchange ...
Enter
PSLab Android App
. Repository for the PSLab Android App
for performing experiments with the
Pocket Science Lab open-hardware
platform. This repository holds the
Android App for...
Enter
MolWgt
. Given the chemical formula, MolWgt
calculates the molecular weight of a
substance. Audience: Advanced End Users,
Developers, Education, Science/Research.
Use...
Enter
PocketAnalyzerPCA
. PocketAnalyzerPCA combines a
geometric algorithm for detecting
pockets in proteins with Principal
Component Analysis and clustering. This
enables visualizati...
Enter
PyBact
. PyBact is an open source software
written in Python for Bacterial
Identification. The software generates
simulated data matrix which accurately
represents th...
Enter
BioNLP-Corpora
. BioNLP-Corpora is a repository of
biomedically and linguistically
annotated corpora and biomedical data
sources. There are many resources
available in separa...
Enter
bruread
. bruread is a program to read and
display NMR data in the Bruker XWIN-NMR
format. The program has a command-line
interface and a graphic display based on
gnup...
Enter
WSciParser
. WSciParser (Web Science Parser) is a
handy small library created in C#.NET to
parse data from web science databases
(ISI Web, NCBI, PubMed.). Features:Full
e...
Enter
openSputnik
. openSputnik is a robust distributed
platform for massive scale
precalculation of genetic and genomic
data using contemporary bioinformatics
methods. Annotate...
Enter
DEEP
. The Differential Evolution,
introduced in 1995 by Storn and Price,
considers the population, that is
divided into branches, one per
computational node. The D...
Enter
papco
. PaPCo is modular IDL software for the
analysis, distribution and display of
science data products. Primarily used by
the space science community but in princ...
Enter
TARIS
. TARIS (Tree Analysis and
Representation of Isopotential Surfaces)
is a software package designed for
molecular similarity purposes in the
field of Computatio...
Enter
STochastic Engine for Pathway Simulation
. Stochastic simulator for signaling
pathways occuring in biological cells.
Handles reaction-diffusion processes in
3D tetrahedral meshes. Please check our
new...
Enter
CTL-RP
. CTL-RP stands for Computation Tree
Logic Resolution Prover. Computation
Tree Logic (CTL) is a branching-time
temporal logic. CTL-RP is a resolution
based the...
Enter
genome
. This project provides visual
interactive interfaces to custom
algorithms used in genomes research.
Audience: Developers, Education,
Science/Research. User in...
Enter
BYU EDIF Tools
. An API for manipulating EDIF netlists
in Java. We use this API to analyze
netlists as a part of our FPGA
reliability project. We intend to keep
the API as ge...
Enter
TreQ
. TreQ aims at mapping reads from next
generation sequencing (NGS) data to a
reference genome, with emphasis on
accuracy in the presence of structural
variatio...
Enter
AutoDock Software in Parallel with GPUs
. Using the CUDA API this project
modifies the AutoDock software to run in
parallel on NVIDIA GPUs. Users will be
able to download and compile the code
and use...
Enter
PocketAnalyzerPCA
. PocketAnalyzerPCA combines a
geometric algorithm for detecting
pockets in proteins with Principal
Component Analysis and clustering. This
enables visualizati...
Enter
PyBact
. PyBact is an open source software
written in Python for Bacterial
Identification. The software generates
simulated data matrix which accurately
represents th...
Enter
Bio-SPICE
. Our goal is to create an open source
framework and toolset for modeling
dynamic cellular network functions, and
to develop a user community committed to
usin...
Enter
S4PM
. The Simple, Scalable, Script-based
Science Processor for Measurements
(S4PM) is a system for highly automated
processing of science data, scalable up
to larg...
Enter
cuDF
. Built based on the Apache Arrow
columnar memory format, cuDF is a GPU
DataFrame library for loading, joining,
aggregating, filtering, and otherwise
manipulat...
Enter
SPADE
. The Structural Proteomics Application
Development Environment is a Python tool
kit for developing and deploying
bioinformatics applications. Handles
graphics...
Enter
BioNLP-Corpora
. BioNLP-Corpora is a repository of
biomedically and linguistically
annotated corpora and biomedical data
sources. There are many resources
available in separa...
Enter
ProTag
. ProTag integrates biological web
services and online databases seamlessly
into the Microsoft Office applications
Word, Excel and PowerPoint. It is
extensible...
Enter
The Protein Similarity Network
. This is the protein similarity
network - PSIN. Here, the nodes are
human proteins and they are linked only
if they share considerable sequence
similarity. We...
Enter
bruread
. bruread is a program to read and
display NMR data in the Bruker XWIN-NMR
format. The program has a command-line
interface and a graphic display based on
gnup...
Enter
Kedro
. Kedro is an open sourced Python
framework for creating maintainable and
modular data science code. Provides the
scaffolding to build more complex data
and ma...
Enter
WSciParser
. WSciParser (Web Science Parser) is a
handy small library created in C#.NET to
parse data from web science databases
(ISI Web, NCBI, PubMed.). Features:Full
e...
Enter
SeaBreeze
. SeaBreeze is a device driver library
that provides an interface to select
Ocean Optics spectrometers. It is
written in C/C++ and builds and runs on
Windows (...
Enter
openSputnik
. openSputnik is a robust distributed
platform for massive scale
precalculation of genetic and genomic
data using contemporary bioinformatics
methods. Annotate...
Enter
SpectralWorks
. Program for viewing, editing,
manipulating, and analyzing absorbance
spectra. Simple arithnetic includes
making linear combinatins of up to 10
spectra. Advan...
Enter
OTforge
. OpenTopography facilitates community
access to high-resolution, Earth
science-oriented, lidar topography data,
& related tools. OTforge serves as
our ope...
Enter
Evrika
. Evrika is a science simulator and
advanced calculator, which is based on
modules. Modules are libraries
containing definitions of concepts that
can be used i...
Enter
HostDesigner
. Although many potential applications
exist in chemistry and material science,
software to allow the general
application of de novo structure-based
design met...
Enter
PPICompare
. PPICompare detects statistically
significant rewiring events in
protein-protein interaction networks -
even if they are caused by alternative
splicing - and ...
Enter
DEEP
. The Differential Evolution,
introduced in 1995 by Storn and Price,
considers the population, that is
divided into branches, one per
computational node. The D...
Enter
papco
. PaPCo is modular IDL software for the
analysis, distribution and display of
science data products. Primarily used by
the space science community but in princ...
Enter
sciNote
. sciNote is an open source electronic
lab notebook (ELN) that helps you manage
your laboratory work and stores all your
experimental data in one place. sciNot...
Enter
TraceViewer
. TraceViewer provides several
functionalities needed by any biologist
who wants to efficiently analyse his/her
trace data. Audience: Education,
Healthcare Ind...
Enter
Turkish Human Mutation Database
. The rapid accumulation of human
mutation data has led to the idea of
establishing a national/ethnic database
in Turkey endorsed by HUGO-MDI/HGVS. The
interdi...
Enter
BYU EDIF Tools
. An API for manipulating EDIF netlists
in Java. We use this API to analyze
netlists as a part of our FPGA
reliability project. We intend to keep
the API as ge...
Enter
BibGlimpse MEDLINE Retriever
. Literature management tools typically
require that bibliography is typed in by
hand for each PDF reprint added. The
BibGlimpse retriever presented here can
a...
Enter
composight
. Composight is a cross-platform
toolkit for 3D-image processing in the
domain of composite materials science.
It is written in C++ and provides small,
problem...
Enter
PPIXpress
. Although protein-protein interaction
networks are an ubiquitous component of
modern systems biology, comparatively
few efforts have been made to tailor
their...
Enter
dupost
. A coupled dual porosity Stokes model
implemented with FEniCS. References: 1.
C. Douglas, X. Hu, B. Bai, X. He, M. Wei
and J. Hou, "A Data Assimilation En...
Enter
SPADE
. The Structural Proteomics Application
Development Environment is a Python tool
kit for developing and deploying
bioinformatics applications. Handles
graphics...
Enter
DDMaker
. DDMaker perform local density
analysis and generates pseudocolor maps
of the spatial distribution of imaged
cellular structures in 2D images,
starting from e...
Enter
SeaBreeze
. SeaBreeze is a device driver library
that provides an interface to select
Ocean Optics spectrometers. It is
written in C/C++ and builds and runs on
Windows (...
Enter
OpenCFU
. OpenCFU is a completely open source
lightweight application designed to
enumerate clustered circular objects
such as bacterial colonies. It can
handle digita...
Enter
Chemistry Calculator
. Solve equations, view charts and
graphs, make conversions, balance
equations and more. Chemistry
Calculator. Audience: Healthcare
Industry, Science/Research,...
Enter
Evrika
. Evrika is a science simulator and
advanced calculator, which is based on
modules. Modules are libraries
containing definitions of concepts that
can be used i...
Enter
PPICompare
. PPICompare detects statistically
significant rewiring events in
protein-protein interaction networks -
even if they are caused by alternative
splicing - and ...
Enter
sciNote
. sciNote is an open source electronic
lab notebook (ELN) that helps you manage
your laboratory work and stores all your
experimental data in one place. sciNot...
Enter
Density-ratio based clustering
. This site provides the source code of
two approaches for density-ratio based
clustering, used for discovering
clusters with varying densities. One
approach i...
Enter
SpectralWorks
. Program for viewing, editing,
manipulating, and analyzing absorbance
spectra. Simple arithnetic includes
making linear combinatins of up to 10
spectra. Advan...
Enter
PPIXpress
. Although protein-protein interaction
networks are an ubiquitous component of
modern systems biology, comparatively
few efforts have been made to tailor
their...
Enter
Avogadro
. Avogadro is an advanced molecular
editor designed for cross-platform use
in computational chemistry, molecular
modeling, bioinformatics, materials
science an...
Enter
pythia
. Pythia is a thermodynamically based
PCR primer design program. Audience:
Science/Research. Programming Language:
C, Python. Categories:Bio-Informatics,
Molec...
Enter
OpenSIMPLY
. OpenSIMPLY is an open source project
for simulation modeling in Delphi,
Lazarus, Free Pascal. Download
OpenSIMPLY at opensimply.org The project
is free compu...
Enter
pHp
. close. Audience: Healthcare Industry,
Science/Research, Education, Developers.
User interface: Web-based. Programming
Language: PHP. Categories:Communication...
Enter
BrainFolding
. Tools for analysing the degree of
folding in the human brain. Audience:
Science/Research. User interface:
Command-line. Programming Language: C.
Categories:M...
Enter
molR
. The "molR" is a set of R
functions for working with and
manipulating (bio)molecular data.
Audience: Science/Research. Programming
Language: S/R. Cate...
Enter
OpenCFU
. OpenCFU is a completely open source
lightweight application designed to
enumerate clustered circular objects
such as bacterial colonies. It can
handle digita...
Enter
XGBoost
. XGBoost is an optimized distributed
gradient boosting library, designed to
be scalable, flexible, portable and
highly efficient. It supports
regression, clas...
Enter
JANPA
. Audience: Science/Research,
Education. User interface: Command-line.
Programming Language: Java.
Categories:Molecular Science, Chemistry,
Physics...
Enter
3D HIV
. A project to create an interactive,
scientifically-accurate 3D model of the
HIV virus. Particularly intended for use
in education. Audience: Education, Scien...
Enter
Pgenesniffer
. This tool will allow individuals to
find and quantify the overlap of
variants with pseudogenic sequences.
Audience: Science/Research. Programming
Language: S...
Enter
VariScan
. VariScan is a software package for
the analysis of DNA sequence
polymorphisms at the whole genome scale.
Audience: Science/Research. User
interface: Command-...
Enter
adicell
. Finite difference modeling of human
head electromagnetics using alternating
direction implicit (ADI) method ported
to the IBM Cell Broadband Engine.
Audience...
Enter
JMolDraw
. 2-D chemical structure drawing
program. Audience: Science/Research.
User interface: Java Swing. Programming
Language: Java. Categories:Molecular
Science, Che...
Enter
Xpose
. Xpose - an S/R based population PK/PD
model building aid for NONMEM. Audience:
Science/Research. User interface:
Console/Terminal. Programming Language:
S/R....
Enter
fgh
. FGH is program that solves
vibrational Schroedinger equation using
the Fourier grid hamiltonian method. The
program requires potential energy
surface and G-m...
Enter
Pyrsstep
. SAS macros and sample code for
stratifying (and aggregating) data
according to time-varying covariates.
Especially useful for Poisson
regression, Cox regress...
Enter
Moleculizer
. Moleculizer is a tool for simulating
and generating biochemical reaction
networks that are specified through a
set of rules for protein-protein
interactions....
Enter
cnsFace
. cnsFace is a GUI for the
Crystallography and NMR System.
Audience: End Users/Desktop,
Science/Research. User interface:
wxWidgets. Programming Language: Pyth...
Enter
SrsUrlApi
. A Perl client library to access
Sequence Retrieval System (SRS) servers
using the REST/CGI API provided by SRS.
Audience: Science/Research, Developers.
Progr...
Enter
Vimes
. Vimes: Visual interface to materials
simulations - An open source,
python/Open GL interface to molecular
and materials simulation programs.
Audience: Science...
Enter
TauFactor
. Please contact the author at
[email protected] for any questions
or if you wish to cite this application
in a academic study. Journal paper
available he...
Enter
FlowtificX
. FlowtificX is a scientific workflow
modelling, collaboration, execution and
tracing tool that allows scientists to
concentrate on their science and to
allevi...
Enter
TAUTGEN
. Tautomer generator is a program that
generates a set of molecules (tautomers)
from a molecular core and number of
hydrogen atoms. Audience:
Science/Research....
Enter
SigViewer
. SigViewer is a viewer for biosignals
such as EEG, EMG, and ECG. SigViewer
supports various file formats. Besides
viewing biosignals, SigViewer can also
creat...
Enter
MOSGWA
. MOSGWA is a tool for genome wide
association studies (GWAS). It currently
implements a search strategy using
logistic regression and linear
regression. Audie...
Enter
BpMatch
. BpMatch is an algorithm that, given 2
strings S and T, compute the maximum
coverage of T using only subequence or
reversed complemented subsequences of S,
of...
Enter
Phobos Application
. Phobos is to be used for recording
rodents' behavior during the
thigmotaxis (open-field) and the
elevated plus-maze tests. Phobos
provides the possibilit...
Enter
Open3DGRID
. An open-source software aimed at
high-throughput generation of molecular
interaction fields (MIFs). Audience:
Science/Research. User interface:
Command-line,...
Enter
EPLF
. The Electron Pair Localization
Function (EPLF) helps to understand
chemical bonding in molecular systems.
This code uses a modified formulation
which allows ...
Enter
hustthesis
. HUST Thesis (hustthesis) is a project
initiated by graduate students of
Huazhong Univ. of Science and Technology
(HUST), China to deliver a LaTeX
template fo...
Enter
FMR Eyetrack
. 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 a...
Enter
lrrr
. Extraction of binding sites of
ligands and search for unknown binding
sites on apoproteins. Some call it
docking. Some call it binding site
detections. Some ...
Enter
libamtrack
. A library contaning amorphous track
based algorithms and auxiliary routines
for the prediction of detector response
and radiobiological cross-sections in
hea...
Enter
vbFRET
. This is a Matlab software package for
single molecule FRET data analysis.
Audience: Engineering, Science/Research.
Programming Language: MATLAB.
Categories:B...
Enter
Aghermann
. A sleep research experiment manager,
EDF (EEG, EMG etc) with power spectrum
analysis and visualisation, and Process
S ('sleep pressure') estimation
f...
Enter
PsyScript - getting experiments done
. Application for scripting Psychology
experiments, similar to SuperLab, MEL or
EPRIME. Audience: Education, Healthcare
Industry, Science/Research. Programming...
Enter
matNMR
. MatNMR is a highly flexible toolbox
for processing 1D and 2D NMR/EPR spectra
in MATLAB and creating high-quality 1D,
2D or 3D plots. Fully GUI and/or script-...
Enter
TEM-simulator
. Simulator for transmission electron
microscope images and tilt series of
biological samples. Audience: Advanced
End Users, Science/Research. User
interface: ...
Enter
PowerMath CAS
. PowerMath is a computer algebra
system designed for all science. It has
the ability, but not the limitation, to
complete advanced or simple science and
math ...
Enter
PiViTi
. This pharmacovigilance web
application permits you to process a
query on the Adverse Event Reporting
System (AERS) data which is published by
the U.S. Food a...
Enter
PolyJen
. PolyJen: Polymerization in a digital
laboratory. Audience: Science/Research,
End Users/Desktop. User interface: Java
Swing. Programming Language: Java. Datab...
Enter
Vet+
. Vet+ Is currently being renewed.
Downloading is not recommended until
further notice. Audience: Healthcare
Industry, Science/Research. User
interface: Web-ba...
Enter
seq2svm
. Machine learning approaches to
finding features that correlate with the
function of small interfering RNAs.
Audience: Science/Research, Advanced End
Users. U...
Enter
Open3DQSAR
. Open3DQSAR is a free, open-source
tool written in C aimed at pharmacophore
exploration by high-throughput
chemometric analysis of molecular
interaction field...
Enter
psicode
. PSI is an open-source program for
computing molecular properties using
high-accuracy, ab initio, quantum
mechanical models. Audience: Education,
Science/Rese...
Enter
Autoencoders
. This is the source code for my 11th
grade science fair project. It involves
the use of autoencoders to improve error
rates with small amounts of labeled data...
Enter
HAPMIXMAP
. A program to model HapMap haplotypes
in genetic association studies using tag
SNP genotypes. Please visit
http://www.ucd.ie/genepi/hapmixmap for
more details...
Enter
DATA system
. DATA system is developed to manage
scientific experimental data especially
in materials science field. Audience:
Science/Research. User interface:
Web-based....
Enter
ConGENER
. ConGENER package is a set of
combinatorial-computational tools to
study families of halogen substituted
molecules, so called congeners.
Audience: Healthcare ...
Enter
MERRYts
. MERRYts is the Most Efficient Reader
for Representing Your Terminology
System. One GUI for all (medical)
Terminology Systems. Audience:
Information Technolog...
Enter
ED Software
. ED Software project contains several
programs used (mostly) for processing
gas-phase electron diffraction (GED)
experimental data. Audience:
Science/Research...
Enter
OOPS
. OOPS means Open Protein Simulator, it
is a program designed to serve as a test
bed for different algorithms for protein
folding, dynamics and structure predi...
Enter
PySpline
. PySpline is a graphical,
cross-platform program for processing
X-ray absorption spectroscopy (XAS) and
Extended X-ray absorption fine structure
(EXAFS) data....
Enter
gfit
. gfit creates an interface between
computational models and experimental
data and provides tools for their
analysis. Audience: Developers,
Education, Science/...
Enter
FluoroCorrect
. FluoroCorrect is a Matlab-based, open
source software package designed for
correcting image deformations introduced
by X-ray image intensifiers in
fluoroscop...
Enter
PyMOlyze
. PyMOlyze is a graphical program to
analyze the results of quantum chemistry
(HF/DFT) calculations. Features include
various population analyses, fragment
ana...
Enter
Tree Visualisation with Visual Cues
. This project extends a previous work
on node link tree visualisation and
interaction by providing visual clues on
hidden structures. We adopt DOITree from
Pr...
Enter
oscilib
. Oscilib (Open Science Library) aims
to be a comprehensive suite of programs
that provide a simple useful way to
solve common scientific and mathematical
prob...
Enter
libcfp
. A Library for Chemical Formula
Parsing. Syntax only, no semantics. No
external library dependencies, namespace
std:: only. Uses UnitTest++ during
development...
Enter
IVuPy
. IVuPy is a set of Python bindings for
the Coin3D C++ class libraries which
serve to create software for 3D
visualization in science and
engineering. IVuPy ai...
Enter
IterMap
. Contains various algorithms that maps
short reads produced from Illumina
(Solexa) Genome Analyzer, or Applied
Biosystems' SOLiD System, to a
reference se...
Enter
mapstedi
. The University of Colorado Museum
(UCM), Denver Museum of Nature and
Science (DMNS), and Denver Botanic
Gardens (DBG) are collaborating to
convert their sepa...
Enter
DANGLE
. DANGLE: A Bayesian inferential
prediction method for protein backbone
dihedral angles and secondary structure
assignments, solely from sequence
information, ...
Enter
Hanalyzer
. The Hanalyzer is a tool designed to
help biologists explain results observed
in genome-scale experiments and to
generate new hypotheses. It combines
informat...
Enter
ea-fold
. ea-fold is a platform to perform
protein folding simulations by means of
evolutionary algorithms. The program
implements a parallelized distributed
evolution...
Enter
PASSIM
. The Patient and Sample System for
Information Management (PASSIM) is a
system for annotation and storage of
data, associated with the collection of
samples i...
Enter
BioQuery
. BioQuery is a bioinformatics tool
that acts as a query builder for
genetic, protein, publication, and other
biomedical databases. BioQuery is also
an update ...
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XStar
. A Collection of STAR/CIF processing
libraries and related tools, including
sub-projects: AStar, TEStar and others.
Audience: Advanced End Users,
Developers, ...
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Veterinary/VMDB HL7 library
. The Veterinary VMDB HL7 Library
Project. Audience: Healthcare Industry,
Science/Research. Programming Language:
C++, Java. Categories:Medical Science
Apps....
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MPQC
. The Massively Parallel Quantum
Chemistry program, MPQC, computes
properties of atoms and molecules from
first principles using the time
independent Schr�ding...
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Dr. Jekyll
. Dr. Jekyll is an interactive voxel
editor for viewing and editing
three-dimensional images. It is
specifically aimed at postprocessing of
segmented datasets,...
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genomecomb
. Genomecomb is a package for the
analysis of complete genome data. It can
be used to compare, annotate and
especially filter the results of
complete genome se...
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FociCounter
. FociCounter is a simple and
user-friendly program for analysis of
gamma-H2AX foci. It allows to determine
the number of foci in a single cell, a
foci intensi...
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Gvib
. GVIB is a user friendly package for
vibrational analysis. Given a molecular
geometry, it will calculate vibrational
frequencies and intensities using
anharmo...
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PGAPy
. pgapack, the parallel genetic
algorithm library is a powerfull genetic
algorithm library by D. Levine,
Mathematics and Computer Science
Division Argonne Nati...
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NAMD Log Parser
. NAMD Log Parser sorts through the log
file generated by NAMD and extracts
energy information to export to a
graphing program or used in the basic
graph provi...
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PSPM
. A distributed/parallel implementation
of SPM. It allows SPM to be run on
multiple processors/computer using the
Message Passing Interface (MPI).
Primarily, i...
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ADMIXMAP
. A program to model admixture using
marker genotype data. Please visit
http://homepages.ed.ac.uk/pmckeigu/admixmap/index.html
for more information. Audience: ...
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GMOL
. GMOL is an application designed to
visualize genome structure in 3D. It
allows users to view the genome
structure at multiple scales, including:
global, chro...
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arrayplex
. ArrayPlex integrates various forms of
microarray data from diverse annotation
and primary data sources. It provides a
programmatic framework (API set) for co...
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Indiana University PINY MD for AIX
. PINY_MD(c) is a multipurpose,
object-oriented molecular simulation
package. Audience: Science/Research.
Programming Language: C.
Categories:Molecular Science...
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medSLT
. medSLT - The Medical Speech
Translator. Audience: Information
Technology, Science/Research, Education,
End Users/Desktop. Programming Language:
Prolog, C, Ja...
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Molly
. The Fortran program MOLLY generates
atomic positions in a molecule from
those of a small number of prototype
atoms and the molecule's point
symmetry. It ...
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sispread
. sispread allows to simulate the
dynamics of an hypothetic infectious
disease within a contact network of
connected people. It is intended to help
people conc...
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2D HF
. This is an extension to the standard
2D HF package (A Numerical Hartree-Fock
Program for Diatomic Molecules by Jacek
Kobus, Leif Laaksonen and Dage Sundholm)...
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LineageEvolver
. LineageEvolver is a simulation system
for molecular evolution. Sequence
evolution is simulated using modular
processes such as substitutions, gene
duplicatio...
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shape
. Shape is a molecular conformation
prediction program. It uses a genetic
algorithm to efficiently search the
conformational space of a biomolecule
and then cl...
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Comparative Genomics Vocabulary
. The Comparative Genomics Vocabulary
(CGV) is a SKOS representation of
comparative genomics containing terms,
text definitions and synonyms of the
domain. The...
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SpacePy
. Now maintained at
github.com/spacepy/spacepy Space Science
library for Python - contains superposed
epoch classes, drift shell tracing,
access to magnetic fi...
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TORCH
. TORCH is a web enabled electronic
health record (EHR) application. TORCH
is usable in single practitioner offices
and scalable up to multi-site practices.
Au...
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Nifty Sim
. Nifty Sim is a high-performance
nonlinear finite element solver,
developed at University College London.
A key feature is the option of GPU-based
execution, ...
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SMMP
. SMMP (Simple Molecular Mechanics for
Proteins) is a program library for
protein simulations with an emphasis on
advanced Monte Carlo algorithms. It
includes ...
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Blox
. The purpose of the project is to
develop a quantitative medical imaging
& visualization program for use on
brain MR, DTI and MRS data. It is a
joint proj...
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phpMedErr
. Originally planned as a medication
error reporting system, this space is
being used to house projects that may of
be of some value to those in the
healthcare...
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Parentheses Classifier
. The Parenthesis Classifier takes the
contents of a set of parentheses and
classifies it into one of several
categories. It includes a
parenthesized-data extr...
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OpenQVis
. High quality volume graphics on
consumer PC hardware. This GPL project
is a graphics application for the
visualization of 3D volume data on
uniform rectiline...
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MindIO
. This project will develop
cross-platform Java software for
interfacing with EEG devices,
specifically hardware developed by the
OpenEEG project (http://opene...
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CCA-fMRI
. CCA-fMRI is a SPM-toolbox
(http://www.fil.ion.ucl.ac.uk/spm/) for
detecting brain activity pattern using
functional magnetic resonance imaging
(fMRI) in comb...
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Physics 3d Simulations
. The Physics 3d Simulations Project,
intends to be a educational tool, for
helping science students understanding
physics concepts of Classical Mechanics,
Ele...
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glare
. GLARE is a library and a software for
product based optimization of reagent
lists in the context of a chemical
combinatorial library design. Large
virtual co...
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phpClinic
. A web-based maintenance management
system for clinics and hospitals. Allows
to store equipment information, customer
complaints and issue workorder sheets. U...
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Meredys
. Meredys (MEsoscopic REaction DYnamics
Simulator) is a particle based
stochastic simulation software designed
to model and simulate reaction-diffusion
systems...
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Protein Geometry Database
. The Protein Geometry Database hosts
the development code for a flexible
database for searching protein geometry,
as well as a library for accessing this
data...
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Chemical Structures
. The Chemical Structures Project is a
set of 3D structures of molecules in CML
format. Each file contains also some
physical properties, which can be access
u...
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PyMOL Plugins
. PyMOL Plugins aims to provide many
plugins for the PyMOL software. You can
find further informations about PyMOL on
this website: http://www.pymol.org/.
Audi...
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SciBearSpace
. Open Source Clinical Information
Management System. From research to
laboratory. Gathering / storing of
analytical data within an SQL database.
Audience: Hea...
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fmrii fMRI Modelling Library
. A C++ library for fMRI modelling and
analysis. It provides classes
implementing the balloon model for
hemodynamics, as well as other useful
neural and experi...
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SLD Calculator
. A GUI to calculate chemical compound
characteristics along with their Neutron
and X-Ray Scattering Length Densities.
Comes as standalone package for Windows,...
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Avogadro
. Avogadro is an advanced molecular
editor designed for cross-platform use
in computational chemistry, molecular
modeling, bioinformatics, materials
science an...
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LAMMPS
. LAMMPS is a classical molecular
dynamics simulator designed for parallel
machines. It can model atomic,
polymeric, biological, metallic, or
mesoscale systems...
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TIGR Spotfinder
. Spotfinder is an image processing
software tool for microarray image
analisys. It is written on C++ with QT
GUI toolkit and runs on Windows, X11,
and Mac OSX...
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mzSquash
. mzSquash is a compression tool for
mzML files, an XML-based standard
developed by HUPO PSI
(http://www.psidev.info) for
spectrometer output. All development ...
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Web graph compression
. This project contains the
implementation of web graph compression
algorithms developed in Technical
University of ?�d? by Institute of
Applied Computer Scien...
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AutoShim
. Tools to build molecular-docking
activity prediction models by PLS
regression with iterative training and
pose-selection. Descriptors include (i)
docking sco...
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