Evidence map›Paper›PMID 37645041›Full record

ArticleArXiv2023

CellProfiler plugins -- an easy image analysis platform integration for containers and Python tools.

Erin Weisbart, Callum Tromans-Coia, Barbara Diaz-Rohrer, David R Stirling, Fernanda Garcia-Fossa, Rebecca A Senft, Mark C Hiner, Marcelo B de Jesus, Kevin W Eliceiri, Beth A Cimini

Abstract readPreprint
PubMed Full text at PMC
In one paragraph

Article in ArXiv, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Erin WeisbartBroad Institute of MIT and Harvard, Cambridge MA, USA.
Callum Tromans-CoiaBroad Institute of MIT and Harvard, Cambridge MA, USA.
Barbara Diaz-RohrerBroad Institute of MIT and Harvard, Cambridge MA, USA.
David R StirlingBroad Institute of MIT and Harvard, Cambridge MA, USA.
Fernanda Garcia-FossaBroad Institute of MIT and Harvard, Cambridge MA, USA.
Rebecca A SenftBroad Institute of MIT and Harvard, Cambridge MA, USA.
Mark C HinerUniversity of Wisconsin-Madison, Madison, WI, USA.
Marcelo B de JesusDepartment of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas, Campinas, São Paulo, Brazil.
Kevin W EliceiriUniversity of Wisconsin-Madison, Madison, WI, USA.
Beth A CiminiBroad Institute of MIT and Harvard, Cambridge MA, USA.

Funding

Center for Open Bioimage AnalysisP41GM135019 · NIGMS · BROAD INSTITUTE, INC. · PI CARPENTER, ANNE E., CIMINI, BETH · 2020 to 2024
$6.9M
NIGMS NIH HHS P41 GM135019
6 · The paper itself

Abstract

CellProfiler is a widely used software for creating reproducible, reusable image analysis workflows without needing to code. In addition to the >90 modules that make up the main CellProfiler program, CellProfiler has a plugins system that allows for the creation of new modules which integrate with other Python tools or tools that are packaged in software containers. The CellProfiler-plugins repository contains a number of these CellProfiler modules, especially modules that are experimental and/or dependency-heavy. Here, we present an upgraded CellProfiler-plugins repository, an example of accessing containerized tools, improved documentation, and added citation/reference tools to facilitate the use and contribution of the community.

Identifiers

PMID37645041
PMCPMC10462170

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.