Assists users in manipulating high-throughput sequencing (HTS) data and formats. Picard is a Java toolkit that provides a set of command line scripts. It comprises Java-based utilities that manipulate SAM files, and a Java API for creating new programs that reads and writes SAM files. Both SAM text format and SAM binary (BAM) format are supported. It also works with next generation sequencing (NGS).
Supplies tools for the analysis and visualization of genomic data. JMP Genomics offers features for genomic selection for crop improvement, pharmacogenomics, expression, statistical genetics, next-gen sequencing, linkage mapping as well as predictive modeling. The software allows the analysis of rare and common variants, detection of differential expression patterns, identification of signals in next-generation sequencing data, discovery of reliable biomarker profiles, and visualization of patterns.
An easy-to-use statistical software with more 200 statistical tests, procedures and graphs. MedCalc allows to perform data management, ROC curve analysis, method comparison and method evaluation including Bland and Altman plot, Passing and Bablok, and Deming regression, and a lot of graphs.
Assists in creating graphs. SigmaPlot is an application that performs mathematical transforms provided in a function palette. Graph features include forest plot, kernel density, dot density with mean & standard error bars, new color schemes or direct labeling. It also includes principal component analysis (PCA), a technique for reducing the complexity of high-dimensional data by approximating the data with fewer dimensions.
Allows incremental sampling in Nystrom based-spectral clustering. MSSS is a cluster algorithm based on Nystrom method. It starts sampling with a fixed number of initial landmark points and selects new landmark points one by one. This tool is able to maximize the determinant of the reduced similarity matrix that represents the mutual similarities between sampled data points.
Analyses, graphs and presents scientific data. GraphPad Prism combines scientific graphing, comprehensive curve fitting (nonlinear regression), understandable statistics, and data organization. It meets virtually all of the data-handling needs of laboratory researchers, especially biologists. Prism makes it easy to create highly-customizable graphs that can be exported as high-resolution image files for publications, PowerPoint presentations, Web sites, Word documents, and more.
Provides a batch version of a neural learning algorithm for Independent Component Analysis (ICA). fastICA is an R package based on a fixed-point method. It was introduce using a very simple yet highly efficient fixed-point iteration scheme for finding the local extrema of the kurtosis of a linear combination of the observed variables. The computations can be performed either in batch mode or semi-adaptively.