[BioC] Software to find the area of a shape in an image

[Ludo Muller]

Hi Dan,

You can try CellProfiler (www.cellprofiler.org), open source software that
allows analysis of cell/tissue images. One of their examples is actually a
pipeline for the detection of tumors in mouse lungs.

Cheers,

Ludo.

---
Ludo A.H. Muller, Ph.D.

University of Coimbra
Centre for Functional Ecology
Calçada Martim de Freitas
3001-455 Coimbra
Portugal

Telephone: +351 239 85 52 49
Fax: +351 239 85 52 11
E-mail: ludo.muller at duke.edu



Hi,

We have a series of tissue slices that have tumour within them and we
would like to quantify the area within each slice that is occupied by
tumour.  Is there a cheap or free program that will assist in this?
either by automatically looking for colours or for a user to manual draw
round a shape and it give you the area?

Not exactly bioconductor related but the idea is to quantify this and
then do various bioinformatics on it.  Hope you forgive me.

Thanks


Dan

--
**************************************************************
Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
Email: daniel.brewer at icr.ac.uk
**************************************************************

The Institute of Cancer Research: Royal Cancer Hospital, a charitable
Company Limited by Guarantee, Registered in England under Company No.
534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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