How did Rutherford figure out the structure of the atom without being able to see it? Simulate the famous experiment in which he disproved the Plum Pudding model of the atom by observing alpha particles bouncing off atoms and determining that they must have a small core.

Each TS was tested for functional enrichment using annotation obtained from numerous ontologies or curated databases (Gene Ontology, KEGG, BioCarta, Swiss-Prot, BBID, SMART, NIH Genetic Association DB, COG/KOG, TargetScan, PicTar, TFBSConserved,...).

When is a molecule polar? Change the electronegativity of atoms in a molecule to see how it affects polarity. See how the molecule behaves in an electric field. Change the bond angle to see how shape affects polarity. See how it works for real molecules in 3D.


Platforms: Mac, Mac OSX

Keyword: Angle, Behaves, Change, Electric, Field, Molecules, Polar, Polarity, Shape, Works

The Ejs Falling Rod Leaning on a Wall model displays the dynamics of a falling rod that is initially leaning against a vertical wall. The rod is dropped from rest while its end points are in contact with a vertical wall and a horizontal table. Friction is neglected. Fall times and the trajectory...


Platforms: Mac, Mac OSX

Keyword: Clicking, Compiled, Contact, Created, Displays, Double, Ejs Ehu Analytical Mechanics Rodjar, Falling, Installed, Leaning, Model, Models, Modify, Physics, Program, Simulation, Simulations, Source, Vertical

FMI Workbench is a Java program useful in order to manage FMI, functional mathematical index.


Platforms: Mac, Mac OSX

Keyword: Functional, Index, Manage, Mathematical, Order, Program, Workbench

The Spherical Mirror Model demonstrates the focusing of light using a spherical mirror. The user can change the size and position of the object, the focal length of the mirror and the rays shown in the diagram. The Spherical Mirror Model was created using the Easy Java Simulations (EJS) modeling...


Platforms: Mac, Mac OSX

Keyword: Archive, Clicking, Compiled, Distributed, Double, Ejs Spherical Mirrorjar, Focusing, Installed, Length, Light, Mirror, Model, Modeling, Program, Readytorun, Simulations, Spherical

MathSheetGenerator is capable of generating math problems with two operands using any of the standard operators (add, subtract, multiply, divide). The number range for both operands as well as the result can be specified to allow the application to generate the exact type of exercises desired....


Platforms: Mac, Mac OSX

Keyword: Application, Capable, Desiredtake, Divide, Exact, Exercises, Generate, Generating, Mathsheetgenerator, Multiply, Operands, Problems, Range, Result, Standard, Subtract

* Explain what happens when you turn on the switch. * Determine whether the blue spheres are positive or negative charges. How can you tell?


Platforms: Mac, Mac OSX

Keyword: Charges, Determine, Explain, Negative, Positive, Spheres, Switch, Tell3f

Analyzing multivariate data sets is not an easy task: the user has to analyze individual variables as well as the relationships between them. Lower-level projection techniques may assist the user in finding interesting combinations; however, few tools support systematic exploration of those...


Platforms: Mac, Mac OSX

Keyword: Analyze, Attention, Categorical, Caterank, Charts, Combinations, Equal, Explores, Histograms, Matrix, Onedimensional, Paper, Proposes, Received, Relationship, Relationships, Variable, Variables, Visualize

Explore forces, energy and work as you push household objects up and down a ramp. Lower and raise the ramp to see how the angle of inclination affects the parallel forces acting on the file cabinet. Graphs show forces, energy and work.


Platforms: Mac, Mac OS X v10.4

Keyword: Acting, Affects, Angle, Cabinet, Energy, Explore, Forces, Graphs, Household, Inclination, Lower, Objects, Parallel, Raise

Keith's Image Stacker is an image processing program that is oriented primarily toward astrophotography. See my astrophotography webpage for information about my personal venture into that hobby. What Keith's Image Stacker provides, more than anything else, is a workspace in which to align many...


Platforms: Mac, Mac OS X v10.5

Keyword: Astrophotography, Average, Comprises, Consists, Image, Images, Individually, Keith, Shine, Similar, Single, Stack, Stacker, Wellestablished

* Predict the necessary mass, velocity, and distance from the sun of a planet in order for this planet to make a circular orbit around a sun. * What happens when you increase or decrease the mass of the planet, but keep everything else constant? Does this agree with your prediction? * What...


Platforms: Mac, Mac OS X v10.4

Keyword: Agree, Circular, Constant, Decrease, Distance, Increase, Initial, Magnitude, Orbit, Order, Planet, Predict, Prediction, Sun, Velocity

The Ejs Simple Pendulum model displays the dynamics of a simple pendulum. The pendulum is initially displaced from equilibrium and the pendulum bob has zero initial velocity. The initial position of the pendulum bob can be changed by click-dragging the bob when the simulation is paused. You can...


Platforms: Mac, Mac OSX

Keyword: Archive, Clicking, Designed, Double, Easier, Ejs Osc Pendulumjar, Generate, Initial, Installed, Model, Models, Modify, Pendulum, Physics, Program, Project, Simple, Simulation, Source

Watch a reaction proceed over time. How does total energy affect a reaction rate? Vary temperature, barrier height, and potential energies. Record concentrations and time in order to extract rate coefficients. Do temperature dependent studies to extract Arrhenius parameters. This simulation is...


Platforms: Mac, Mac OS X v10.4

Keyword: Affect, Analogy, Arrhenius, Chemical, Coefficients, Dependent, Energy, Extract, Guidance, Order, Parameters, Presents, Rate, Reaction, Reactions, Simulation, Studies, Teacher, Temperature

The Point Charge Electric Field Demo model shows the electric field with multiple point charge configurations and vector field visualizations. Users can select these configurations from a drop down menu or can create their own configurations. The Point Charge Electric Field Demo model was...


Platforms: Mac, Mac OSX

Keyword: Archive, Charge, Click, Compiled, Configurations, Created, Distributed, Double, Ejs Pointchargeelectricfielddemojar, Electric, Field, Installed, Model, Modeling, Point, Program, Readytorun, Simulations

An interactive simulation of protein folding that allows you to fold proteins of your own design.


Platforms: Mac, Mac OSX

Keyword: Design, Folding, Interactive, Protein, Proteins, Simulation

Columbus Viewer is an OSX application to manage tracks produced by the Columbus V-900 GPS Logger. I wrote it to overcome some of the limitations of TimeAlbum, the software shipped with the logger. The focus was on reverse geocoding of tracks, visualization of trakcs on a map, and simple...


Platforms: Mac, Mac OS X v10.4

Keyword: Application, Columbus, Columbusview, Configurations, Files, Functions, Logger, Nicely, Performed, Resulting, Shown, Timealbum, Timealbumcolumbusviewer, Tracks

SimpleDEMViewer reads Digital Elevation Model (DEM) data and shows colored elevation map on a Mac screen. It can make bird's-eye views, stereographs and others. DEMs supported gtopo30, hydro1k, srtm, srtm dted, srtm30plus, etopo2, etopo5, globe, gdem some bil forms, usgs ascii DEMs, DEMs from...


Platforms: Mac, Mac OS X v10.4

Keyword: Azimuthal, Bird Seye, Chartscreates, Color, Conical, Elevation, Equiarea, Equidistantand, Mapmemos, Mapsmakes, Mercator, Online, Orthographic, Pdfsee, Pictures, Profile, Projection, Stereographic, Strings

Software for children to learn calculation using only mouse operations. This software can be learned only by mouse operation. It is 100 Blocks calculation software. In a notebook PC, especially, a troublesome ten key input is unnecessary and it can learn easily only by clicking [the input panel...


Platforms: Mac, Mac OSX

Keyword: Calculationquot, Capability, Contracting, Etcit, Function, Inputting, Lapsed, Performed, Print, Problem, Quot, Raises, Repeatedly, School, Solving, Study, Tackle

The Scalar Field Gradient Model displays the gradient of a scalar field using a numerical approximation to the partial derivatives. This simple teaching model also shows how to display and model scalar and vector fields using EJS. The EJS Scalar Field Gradient Model was created using the Easy...


Platforms: Mac, Mac OSX

Keyword: Archive, Clicking, Compiled, Created, Distributed, Double, Ejs Math Scalarfieldgradientjar, Ejsthe, Field, Gradient, Installed, Model, Modeling, Program, Readytorun, Scalar, Simulations