Cellpose
Depends
Confidence: Medium
Buy (it's free) if you're a research lab segmenting cells in microscopy images . it's the field standard.
New check
Comparison
Cellpose vs ilastik
ilastik
Starting report…
Pick Cellpose when
- Biology labs segmenting cells in microscopy images
- Bioimage analysts building batch pipelines
- Researchers training custom models on their own data
- Teams wanting a free alternative to commercial segmentation suites
When Cellpose is not a fit
- Anyone with zero Python or coding comfort
- Non-biology image tasks . documents, objects, people
- Regulated teams needing vendor support contracts
- One-off image edits; ImageJ thresholding suffices
Sources
- Cellpose: a generalist algorithm for cellular segmentationpubmed.ncbi.nlm.nih.govofficial
- MouseLand/cellpose on GitHubgithub.comofficial
news
news
- Cellpose in QuPath gave different outcomes (3.2 vs 4.3)forum.image.screview
- Cellpose custom model performance suffers in 3Dforum.image.screview
- RunCellPose plugin vs standalone results differforum.image.screview
- Cellpose as a reliable method for single-cell segmentation (Broad)broadinstitute.orgnews
- Cellpose license (open source)github.comofficial
- Cellpose security pagecellpose.orgsecurity
- forum.image.scforum.image.screview