Gitter: a robust and accurate method for quantification of colony sizes from plate images.

ABSTRACT: Colony-based screens that quantify the fitness of clonal populations on solid agar plates are perhaps the most important source of genome-scale functional information in microorganisms. The images of ordered arrays of mutants produced by such experiments can be difficult to process because of laboratory-specific plate features, morphed colonies, plate edges, noise, and other artifacts. Most of the tools developed to address this problem are optimized to handle a single setup and do not work out of the box in other settings. We present gitter, an image analysis tool for robust and accurate processing of images from colony-based screens. gitter works by first finding the grid of colonies from a preprocessed image and then locating the bounds of each colony separately. We show that gitter pro

SUBMITTER: Wagih O 

PROVIDER: S-EPMC3962492 | biostudies-literature | 2014 Mar

REPOSITORIES: biostudies-literature