:: DESCRIPTION
AFDP is intended for processing and analysis of a series of fluorescence spectra recorded within a serial experiment like, for example, unfolding or titration series.
::DEVELOPER
Hofmann Laboratory, Eskitis Institute
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Hofmann, A., Wlodawer, A. (2002)
PCSB – a programme collection for structural biology and biophysical chemistry.
Bioinformatics 18, 209-210.
:: DESCRIPTION
SIMToolbox is an open-source, modular set of functions for MATLAB designed for processing data acquired by structured illumination microscopy.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
SIMToolbox: a MATLAB toolbox for structured illumination fluorescence microscopy.
Křížek P, Lukeš T, Ovesný M, Fliegel K, Hagen GM.
Bioinformatics. 2015 Oct 6. pii: btv576.
:: DESCRIPTION
“FISHtrees” is a software program:
1) to parse copy numbers of multiple Fluorescence In Situ Hybridization (FISH) probe signals in a single-cell assay;
2) to analyze probe signals across multiple single-cell assays in a patient data file;
3) to model tumorigenesis as a tree of tumor progression paths for a given probe on a given patient data file;
4) to merge multiple tumorigenesis trees to represent multiple probes on a given patient data file;
5) to compute consensus multiple joint tumorigenesis trees representing multiple patient data files into a network as a graph of tumor progression pathways.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Gertz EM, et al.
FISHtrees 3.0: Tumor Phylogenetics Using a Ploidy Probe.
PLoS One. 2016 Jun 30;11(6):e0158569. doi: 10.1371/journal.pone.0158569. PMID: 27362268; PMCID: PMC4928784.
Bioinformatics. 2013 Jul 1;29(13):i189-98. doi: 10.1093/bioinformatics/btt205.
Phylogenetic analysis of multiprobe fluorescence in situ hybridization data from tumor cell populations.
Chowdhury SA1, Shackney SE, Heselmeyer-Haddad K, Ried T, Schäffer AA, Schwartz R.
:: DESCRIPTION
WellReader implements computational methods developed for the analysis of the dynamics of gene expression in microorganisms, measured by means of fluorescent and luminescent reporter genes.
::DEVELOPER
the Ibis group at INRIA Grenoble-Rhône-Alpes.
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2010 May 1;26(9):1262-3. doi: 10.1093/bioinformatics/btq016. Epub 2010 Jan 22.
WellReader: a MATLAB program for the analysis of fluorescence and luminescence reporter gene data.
Boyer F, Besson B, Baptist G, Izard J, Pinel C, Ropers D, Geiselmann J, de Jong H.
:: DESCRIPTION
Visual3D uses OpenGL textures to generate a 3D visualization of confocal and wide field fluorescence microscopy images. Custom color palettes can be applied to grey value images. AVI movies can be created with a build in script engine.
::DEVELOPER
AMC, CMO, Amsterdam, The Netherlands – Contact: R.A.Hoebe -at- amc.nl
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
This software is free to anyone, just for fun send author a postcard:
AMC, Cell biology & Histology CMO, Ron Hoebe, Room M3-106-1
Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
