Batch Your CellProfiler Analyses
I'm going to show you how you can take a CellProfiler analysis and split it to make your analyses run faster and more efficiently. Then I'll demonstrate how you can profile your analyses for memory and cpu usage in order to make informed decisions about your parallelizing your workflows.
Thanks to the Broad Institute and the Broad BioImage Benchmark Repository! We will use the BBBC021 Human MCF7 cells – compound-profiling experiment dataset available here - https://data.broadinstitute.org/bbbc/....
The post + code are both coming soon!
If you have any questions or are interested in my consulting services please reach out to me at [email protected] or check out https://www.dabbleofdevops.com
Citations -
"We used image set BBBC021v1 [Caie et al., Molecular Cancer Therapeutics, 2010], available from the Broad Bioimage Benchmark Collection [Ljosa et al., Nature Methods, 2012]."