Blog

Search results

57 results found

Thinking like an image analyst, Part I: Project overview and data import

Pearl V. Ryder One thing I’ve found very helpful in my journey as an image analyst is learning from others by observing their thought process when they tackle a new problem. In this series of five blog posts, my goal is to share how I approached an image analysis project that I recently undertook as...

Help! How does the Robust Background method work?

Pearl V. Ryder The Robust Background algorithm is a powerful algorithm for automatically setting thresholds to segment objects of interest when your image contains mostly background. However, since it contains the largest number of tunable parameters of any thresholding algorithm in CellProfiler, it...

CellProfiler 4.2 Release

David R. Stirling Hi all, We’ve now released CellProfiler 4.2! You can download it from https://cellprofiler.org/releases . We have a few new features and improvements in this release. There have been numerous smaller bug fixes, but the key changes are as follows: We’ve fixed an issue which was...

Getting started using CellProfiler from the command line

Beth Cimini Cross posted from our GitHub wiki — check there for any future updates! Running CellProfiler from the command line has a major advantage — you don't need to spend computational power or memory creating the graphical user interface (GUI) that you're used to using in CellProfiler! It also...

CellProfiler 4.1 Release

Beth Cimini Hi all, We hope you’re enjoying our new CellProfiler 4.1 release! If you haven’t had a chance to see it yet, please do grab a copy from https://cellprofiler.org/releases . There are a few new features or changes of note we’re particularly excited to share with you all: For the first time...

CellProfiler 4.0 Release: Improvements in speed, utility, and usability

David R. Stirling We have now released CellProfiler version 4.0! Download it here . The primary goal of this release has been to migrate CellProfiler from Python 2 to Python 3. This has involved extensive restructuring of the code base, leading to a lot of “under-the-hood” improvements. Important...

Getting Started with CellProfiler in Batch

Guest Author This post was written by a guest author, Jillian Rowe , who can be reached at jillian@dabbleofdevops.com . Running CellProfiler in batch mode is the ideal way to automate large scale analyses. Or not so large scale analyses that you prefer to automate! One of the benefits of running...