A Hitchhiker's guide through the bio‐image analysis software universe

Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes....

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Published inFEBS letters Vol. 596; no. 19; pp. 2472 - 2485
Main Authors Haase, Robert, Fazeli, Elnaz, Legland, David, Doube, Michael, Culley, Siân, Belevich, Ilya, Jokitalo, Eija, Schorb, Martin, Klemm, Anna, Tischer, Christian
Format Journal Article
LanguageEnglish
Published Wiley 01.10.2022
Subjects
Bioengineering
bioimaging
Bioinformatics
bio‐image analysis
Computer Science
computer software
Computerized Image Processing
Datoriserad bildbehandling
Imaging
Life Sciences
microscopy
Numerical Analysis
open‐source
software
bio-image analysis
software
open-source
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Abstract Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes. As it is increasingly difficult to keep track of the number of available image analysis platforms, tool collections, components and emerging technologies, we provide a conservative overview of software that we use in daily routine and give insights into emerging new tools. We give guidance on which aspects to consider when choosing the platform that best suits the user's needs, including aspects such as image data type, skills of the team, infrastructure and community at the institute and availability of time and budget. In this review, we provide a Hitchhiker's guide through the bio‐image analysis software universe for expert and non‐expert users.
AbstractList Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes. As it is increasingly difficult to keep track of the number of available image analysis platforms, tool collections, components and emerging technologies, we provide a conservative overview of software that we use in daily routine and give insights into emerging new tools. We give guidance on which aspects to consider when choosing the platform that best suits the user's needs, including aspects such as image data type, skills of the team, infrastructure and community at the institute and availability of time and budget. In this review, we provide a Hitchhiker's guide through the bio‐image analysis software universe for expert and non‐expert users.
Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes. As it is increasingly difficult to keep track of the number of available image analysis platforms, tool collections, components and emerging technologies, we provide a conservative overview of software that we use in daily routine and give insights into emerging new tools. We give guidance on which aspects to consider when choosing the platform that best suits the user's needs, including aspects such as image data type, skills of the team, infrastructure and community at the institute and availability of time and budget.
Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes. As it is increasingly difficult to keep track of the number of available image analysis platforms, tool collections, components and emerging technologies, we provide a conservative overview of software that we use in daily routine and give insights into emerging new tools. We give guidance on which aspects to consider when choosing the platform that best suits the user's needs, including aspects such as image data type, skills of the team, infrastructure and community at the institute and availability of time and budget.Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes. As it is increasingly difficult to keep track of the number of available image analysis platforms, tool collections, components and emerging technologies, we provide a conservative overview of software that we use in daily routine and give insights into emerging new tools. We give guidance on which aspects to consider when choosing the platform that best suits the user's needs, including aspects such as image data type, skills of the team, infrastructure and community at the institute and availability of time and budget.
Author Haase, Robert
Klemm, Anna
Tischer, Christian
Jokitalo, Eija
Fazeli, Elnaz
Culley, Siân
Schorb, Martin
Belevich, Ilya
Legland, David
Doube, Michael
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Snippet Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from...
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SubjectTerms Bioengineering
bioimaging
Bioinformatics
bio‐image analysis
Computer Science
computer software
Computerized Image Processing
Datoriserad bildbehandling
Imaging
Life Sciences
microscopy
Numerical Analysis
open‐source
software
Title A Hitchhiker's guide through the bio‐image analysis software universe
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