Equipment, Software, & Tools
JMP is the data analysis tool of choice for hundreds of thousands of scientists, engineers and other data explorers worldwide. Users leverage powerful statistical and analytic capabilities in JMP to discover the unexpected. With JMP you can perform data analysis, data acquisition and cleanup, data visualization, reliability analysis, text exploration, statistical modeling, and it integrates with SAS, MATLAB, and R.
Lasergene provides users a full range of tools for manipulation of sequence data. Lasergene is applicable to both nucleic acid and protein sequences. Example functions operating on sequences are editing, annotating, virtual cloning, primer design, and SNP discovery. Lasergene is available for PC and Mac platforms.
Create and share interactive web maps for GIS data.
MATLAB (matrix laboratory) is a multi-paradigm numerical computing environment. MATLAB allows matrix manipulations, plotting of functions and data, implementation of algorithms, creation of user interfaces, and interfacing with programs written in other languages, including C, C++, C#, Java, Fortran and Python.
MetaCore is a web-based bioinformatics suite that allows researchers to upload data analysis results from experiments such as microarray, next generation sequencing, metabolic, SAGE, siRNA, microRNA, and screening. It provides functional analysis to identify the most relevant pathways, networks, and cellular processes in the data. Additionally, gene, protein, compound, pathwaymap, and disease searches are available.
Neo4J is a free, open-source graph database program. It can be used to model complex systems and networks to reveal patterns and connections. It also uses Cypher, a graph query language, to allow users to conduct complicated database queries. To learn more about Neo4J, visit the Neo4J homepage.
Use Netfabb Basic to make editing, repairing and analysing designs for 3D printing quick and easy. View, repair, and edit .STL files. Analyze and repair files to make models airtight. Make simple adjustments for proper fitting on build plate.
OpenRefine (formerly known as Google Refine) is a free, open source tool for working with messy data. With OpenRefine, users can process and clean their data, save to different formats, and upload to participating databases. To learn more, visit the OpenRefine homepage.
OpenSCAD is a software for creating solid 3D CAD models. It is free software and available for Linux/UNIX, Windows and Mac OS X. Unlike most free software for creating 3D models (such as Blender) it does not focus on the artistic aspects of 3D modelling but instead on the CAD aspects. Thus it might be the application you are looking for when you are planning to create 3D models of machine parts but pretty sure is not what you are looking for when you are more interested in creating computer-animated movies.
Partek Flow is for the analysis of next generation sequencing data: RNA, small RNA, and DNA sequencing. Functionality provided is quality control, alignment, quantification, statistics, and visualization.
Partek Genomics Suite is used to analyze high throughput data, for example, from microarray experiments and next generation sequencing experiments. It can be used to analyze any data set with lists of values associated with identifiers and experiment factors. It has a number of clustering and statistical algorithms to aid in the visualization and discovery of patterns in large data sets. Partek is available for PC, Mac and Linux platforms.
Partek® Pathway™ integrates with Partek Genomics Suite to allow you to interactively browse the KEGG database, then apply advanced statistical models for accurate results.
Ariadne's Pathway Studio is pathway analysis software for interpreting gene expression and other high throughput data; building, expanding and analyzing pathways; finding relationships among genes, proteins, cell processes and diseases; and drawing pathway diagrams.
ProteinLounge is a collection of many interactive web-based databases and tools to help the life scientists access and analyze gene/protein data. The databases include Pathway Database, siRNA Database, Peptide-Antigen Database, Protein Interaction Database, Kinase-Phosphatase Database, Transcription Factors Database, Disease Genes Database, Biochemical Compound Database and Protein Database. The analysis tools include Pathways Builder Tool, Protein Hydroplotter, Peptide Finder, Easy siRNA, Clone Easy and Protein Vision.
QGIS is a free and open-source cross-platform desktop geographic information system application that supports viewing, editing, and analysis of geospatial data.
R is a programming language and environment for statistical computing and graphics. The R environment provides an integrated suite of software facilities for data manipulation, calculation and graphical display. R can import and export data in a variety of formats, both open source and proprietary, including plain text and comma-separated values (CSV), Excel spreadsheets (.XLS and .XLSX), files from a variety of statistical packages (including SAS, SPSS, and Stata), and more.
SCaVis (Scientific Computation and Visualization Environment) is a free, Java-based environment for scientific computation, data analysis and data visualization.
Sci2 is a free, modular toolset designed by researchers at Indiana University for the study of science. It can be used for temporal, geospatial, topical, and network analysis, and visualizations of scholarly datasets.