| Title: |
pomBseen: An automated pipeline for analysis of fission yeast images |
| Authors: |
Ohira, Makoto; Rhind, Nicholas |
| Contributors: |
Rai, Sudhir Kumar; NIGMS |
| Source: |
PLOS ONE ; volume 18, issue 9, page e0291391 ; ISSN 1932-6203 |
| Publisher Information: |
Public Library of Science (PLoS) |
| Publication Year: |
2023 |
| Collection: |
PLOS Publications (via CrossRef) |
| Description: |
Fission yeast is a model organism widely used for studies of eukaryotic cell biology. As such, it is subject to bright-field and fluorescent microscopy. Manual analysis of such data can be laborious and subjective. Therefore, we have developed pomBseen, an image analysis pipeline for the quantitation of fission yeast micrographs containing a bright-field channel and up to two fluorescent channels. It accepts a wide range of image formats and produces a table with the size and total and nuclear fluorescent intensities of the cells in the image. Benchmarking of the pipeline against manually annotated datasets demonstrates that it reliably segments cells and acquires their image parameters. Written in MATLAB, pomBseen is also available as a standalone application. |
| Document Type: |
article in journal/newspaper |
| Language: |
English |
| DOI: |
10.1371/journal.pone.0291391 |
| Availability: |
https://doi.org/10.1371/journal.pone.0291391; https://dx.plos.org/10.1371/journal.pone.0291391 |
| Rights: |
http://creativecommons.org/licenses/by/4.0/ |
| Accession Number: |
edsbas.1EFF86BD |
| Database: |
BASE |