SPICE 6.1001 – Data Mining & Visualization Software for Multicolor Flow Cytometry

SPICE 6.1001

:: DESCRIPTION

SPICE is a data mining software application that analyzes large FLOWJO data sets from polychromatic flow cytometry and organizes the normalized data graphically. SPICE enables users to discover potential correlations in their experimental data within complex data sets.

::DEVELOPER

Bioinformatics and Computational Biosciences Branch (BCBB),National Institute of Allergy and Infectious Diseases (NIAID)

:: SCREENSHOTS

SPICE

:: REQUIREMENTS

  • Mac OsX

:: DOWNLOAD

 SPICE

:: MORE INFORMATION

Citation

Cytometry A. 2011 Feb;79(2):167-74. doi: 10.1002/cyto.a.21015. Epub 2011 Jan 7.
SPICE: exploration and analysis of post-cytometric complex multivariate datasets.
Roederer M, Nozzi JL, Nason MC.

Cell Culture 1.0 – Record Cell Culture Data in the lab

Cell Culture 1.0

:: DESCRIPTION

The Cell Culture Companion app helps you eliminate variability by allowing you to record cell culture data in the lab, as it happens. Capture and store vital experiment information on your iPhone or iPad in the lab as you count cells, perform cell culture calculations and generate growth curves. And when you’re finished, you can export all data files to your Mac or PC.

::DEVELOPER

Thermo Fisher Scientific Inc.

:: SCREENSHOTS

CellCulture

:: REQUIREMENTS

  • iPhone /  iPad

:: DOWNLOAD

 Cell Culture

:: MORE INFORMATION

Hackit – Program for Clipping & Joining FCS List Mode Data Files

Hackit

:: DESCRIPTION

Hackit is a program for clipping and joining FCS list mode data files.Where it is feared that a flow cytometry data file has been violated, for example at the start of the file by cells carried over from the previous sample, or at the end of the file by a nozzle blockage, Hackit can be used to clip the offending stream of cells from the file. It may be used also to concatenate the data from a number of files.

::DEVELOPER

Francis L. Battye

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Mac OsX /  Linux
  • Java

:: DOWNLOAD

 Hackit

:: MORE INFORMATION

De-Identifier – Remove Patient Identification from FCS file

De-Identifier

:: DESCRIPTION

DeID (De-Identifier) is used to remove patient identification from flow cytometry standard (FCS) data files.  This is achieved by writing a copy of the data file with selected keyword values removed.

::DEVELOPER

Francis L. Battye

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Mac OsX /  Linux
  • Java

:: DOWNLOAD

 DeID

:: MORE INFORMATION

Cellular Symphony – Audio Representation of Flow Cytometric Data

Cellular Symphony

:: DESCRIPTION

Cellular Symphony (CellSymphony) is an audio representation of flow cytometric data. Each cell is represented by musical notes of timbre, pitch and volume dependent on its FCM parameters. The program correlates the audio output with 2D and 3D graphical display. It may be that only a musical savant can detect the intricacies in a 3-instrument cellular symphony or it may be that the average cytometrist also can do so with practice.

::DEVELOPER

Francis L. Battye

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Mac OsX /  Linux
  • Java

:: DOWNLOAD

 Cellular Symphony

:: MORE INFORMATION

Citation

Francis L Battye
The Cellular Symphony
the 2006 annual meeting of the Australasian Flow Cytometry Group Inc.

flowPhyto 2.4.1 – Analysis of Continuous Flowcytometry Data

flowPhyto 2.4.1

:: DESCRIPTION

flowPhyto is an R package that performs aggregate statistics on virtually unlimited collections of raw flow cytometry files and provides a memory efficient, parallelized solution for analyzing high-throughput flow cytometric data.

::DEVELOPER

Armbrust Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • R
  • BioConductor

:: DOWNLOAD

 flowPhyto

:: MORE INFORMATION

Citation

Bioinformatics. 2011 Mar 1;27(5):732-3. doi: 10.1093/bioinformatics/btr003.
flowPhyto: enabling automated analysis of microscopic algae from continuous flow cytometric data.
Ribalet F1, Schruth DM, Armbrust EV.

FIND 0.31 – Flow Investigation using N-Dimensions

FIND 0.31

:: DESCRIPTION

FIND is a software package designed to facilitate the visualization and analysis of Flow Cytometry data for the scientific target audience, as well as providing a target platform for developers to implement their FC-specific algorithms.

::DEVELOPER

Battelle Center for Mathematical Medicine

:: SCREENSHOTS

find

:: REQUIREMENTS

  • Windows / MacOsX

:: DOWNLOAD

 FIND

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2011 May 10;12:145. doi: 10.1186/1471-2105-12-145.
FIND: a new software tool and development platform for enhanced multicolor flow analysis.
Dabdoub SM1, Ray WC, Justice SS.

NetworkPainter – Pathway Animation in Cytobank

NetworkPainter

:: DESCRIPTION

NetworkPainter is a web-based program for visually analyzing data stored in Cytobank. NetworkPainter enables researchers to draw signaling network diagrams and animate them with time-lapsed experimental data such as flow and mass cytometry. NetworkPainter can be used to analyze any data contained within Cytobank.

::DEVELOPER

NetworkPainter team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

NetworkPainter: dynamic intracellular pathway animation in Cytobank.
Karr JR, Guturu H, Chen EY, Blair SL, Irish JM, Kotecha N, Covert MW.
BMC Bioinformatics. 2015 May 25;16:172. doi: 10.1186/s12859-015-0602-4.