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The two heat maps to the right, labeled "Data Analysis Heat Map Example," show different ways in which one may present genomic data over a specific region (Hist1 region) to someone outside the field of biology so they have a better understanding of the general concept a biologist or data scientist are trying to present.
Extensive data warehouse system for the analysis and integration of biological datasets written in Java and JavaScript Cross-platform: LGPL: University of Cambridge: LabKey Server: Software platform, allows organizations to integrate, analyze, and share complex biomedical data Linux, macOS, Windows: Apache: LabKey Software Foundation LAMMPS
Software tools used for visualizing biological data range from simple, standalone programs to complex, integrated systems. An emerging trend is the blurring of boundaries between the visualization of 3D structures at atomic resolution, the visualization of larger complexes by cryo-electron microscopy , and the visualization of the location of ...
gretl is an example of an open-source statistical package. ADaMSoft – a generalized statistical software with data mining algorithms and methods for data management; ADMB – a software suite for non-linear statistical modeling based on C++ which uses automatic differentiation; Chronux – for neurobiological time series data; DAP – free ...
Results of differential expression analysis can be integrated with ChIP-Seq data to build average tag density profiles and heat maps. The package makes use of several tools open source tools including STAR and DESeq. See also. [72] Chipster is a user-friendly analysis software for high-throughput data. It contains over 350 analysis tools for ...
These profiles can, for example, distinguish between cells that are actively dividing, or show how the cells react to a particular treatment. Many experiments of this sort measure an entire genome simultaneously, that is, every gene present in a particular cell. Several transcriptomics technologies can be used to generate the necessary data to ...
PySCeSToolbox [46] is a set of metabolic model analysis tools. Among other features, it can be used to generate the control analysis equations that relate the elasticities to the control coefficients. The package is cross-platform and requires PySCeS and Maxima to operate. multiplatform (C++/Python) BSD-3
pathway based data integration and visualization, easy to use and integrate into pathway analysis multiplatform (R/Bioconductor) GPL: SBMLDiagrams [2] Python API to display and edit SBML layout/render extension: multiplatform: MIT: Systrip: analysis of time-series data in the context of biological networks Windows, Linux: LGPL, GPL