Data transformation software tools | Flow cytometry analysis
Flow cytometry measurements can vary over several orders of magnitude, cell populations can have variances that depend on their mean fluorescence intensities, and may exhibit heavily-skewed distributions. Consequently, the choice of data transformation can influence the output of automated gating. An appropriate data transformation aids in data visualization and gating of cell populations across the range of data. Experience shows that the choice of transformation is data specific.
A flow cytometry data analysis software.. FlowJo contains a list of loaded samples (experimental data), statistics, gates, and other analyses, as well as tabular and graphical layouts. FlowJo provides features and tools for the creation of histogram and other plot overlays, cell cycle analysis, calcium flux analysis, proliferation analysis, quantitation, cluster identification and backgating display.
Analyzes flow cytometry listmode data. Kaluza provides a graphic interface allowing users to investigate large files obtained through complex color analysis. It includes a wide range of characteristics including the producing of tables, gates (with an adjustment compensation), tables and quality check (QC) reports as well as features for management of the data, batch processing and the exporting of the data for further analysis or publication.
Performs flow cytometry data analysis. Flowing Software provides a set of features able to generate a wide range of plots such as overlay histograms or dot plots. The application also furnishes advanced functions for statistics as well as an event number reducers and various calculators and updaters. The platform can support different standard flow cytometry formats and is also able to handle statistics imported from external software.
Offers a platform for the manipulation of flow cytometry data. Weasel includes functions to generate various plots, such as histograms or biplots, which allows users to perform multiple comparisons. This application also includes a feature for batch processing as well as utilities for generating statistics as well as for easing the importation and integration of data in external files.
A data management system for flow cytometry data analysis. flowCore allows to handle flow cytometry high content screening data and encourages open development of tools for their coherent analysis. A key component of this package is having suitable data structures that support the application of similar operations to a collection of samples or a clinical cohort. Flowcore constitutes a shared and extensible research platform that enables collaboration between bioinformaticians, statisticians, biologists and clinicians.
Facilitates the analysis of cellular heterogeneity, the identification of cell types, and comparison of functional markers in response to perturbations, based on a versatile method. SPADE helps to organize high-dimensional cytometry data in an unsupervised manner, and to investigate natural and pathogenic cellular heterogeneity for biological insight. The SPADE algorithm consists of four components: (i) density-dependent downsampling, (ii) clustering, (iii) linking clusters with a minimum spanning tree, and (iv) upsampling to restore all cells in the final result. This modularized process allows more efficient sub-algorithms to replace the current components. In this sense, SPADE can be viewed as a framework for cytometric data analysis and visualization that has the capacity to be evolved and adapted.
A package that provides graphical diagnostics and quality assessment applications. flowViz adapts principles of Trellis graphics to FCM data. It provides useful visualizations that can aid automated analysis of flow cytometry data.