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15 changes: 15 additions & 0 deletions paper/paper.bib
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Expand Up @@ -136,3 +136,18 @@ @article{mlr3pipelines2021
volume = {22},
year = {2021}
}

@article{Sonabend2021,
author = {Sonabend, Raphael and Kir{\'{a}}ly, Franz J. and Bender, Andreas and Bischl, Bernd and Lang, Michel},
doi = {10.1093/BIOINFORMATICS/BTAB039},
issn = {1367-4803},
journal = {Bioinformatics},
month = {sep},
number = {17},
pages = {2789--2791},
publisher = {Oxford Academic},
title = {{mlr3proba: an R package for machine learning in survival analysis}},
url = {https://academic.oup.com/bioinformatics/article/37/17/2789/6125361},
volume = {37},
year = {2021}
}
66 changes: 61 additions & 5 deletions paper/paper.md
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Expand Up @@ -9,24 +9,79 @@ authors:
- name: Sebastian Fischer
orcid: 0000-0002-9609-3197
affiliation: "2, 3"
- name: John Zobolas
orcid: 0000-0002-3609-8674
affiliation: 4
- name: Raphael Sonabend
orcid: 0000-0001-9225-4654
- name: Marc Becker
orcid: 0000-0002-8115-0400
affiliation: 2
- name: Michel Lang
orcid: 0000-0001-9754-0393
affiliation: "1, 2"
- name: Martin Binder
affiliation: 2
- name: Lennart Schneider
orchid: 0000-0003-4152-5308
affiliation: 2
- name: Lukas Burk
orchid: 0000-0001-7528-3795
affiliation: "2, 3"
- name: Patrick Schratz
orcid: 0000-0003-0748-6624
affiliation: 2
- name: Byron C. Jaeger
orchid: 0000-0001-7399-2299
affiliation:
- name: Stephen A. Lauer
orchid:
affiliation: 7
- name: Lorenz A. Kapsner
orchid:
affiliation: 8
- name: Maximilian Mücke
orchid: 0009-0000-9432-9795
affiliation: 2
- name: Zezhi Wang
orchid:
affiliation: 9
- name: Keenan Ganz
orchid: 0000-0002-8486-3959
affiliation: 10
- name: Henri Funk
orchid: 0009-0007-0949-8385
affiliation:
- name: Philipp Kopper
orchid: 0000-0002-5037-7135
affiliation: 3
- name: Andreas Bender
orchid: 0000-0001-5628-8611
affiliation: "2, 3"
- name: Bernd Bischl
orcid: 0000-0001-6002-6980
affiliation: "2, 3"
affiliation: "2, 3, 5, 6"
affiliations:
- name: TU Dortmund University
- name: TU Dortmund University, Germany
index: 1
- name: LMU Munich
- name: Department of Statistics, LMU Munich, Germany
index: 2
- name: Munich Center for Machine Learning
- name: Munich Center for Machine Learning (MCML), Germany
index: 3
- name: Department of Cancer Genetics, Institute for Cancer Research, Oslo University Hospital, Norway
index: 4
- name: Leibniz Institute for Prevention Research and Epidemiology (BIPS), Bremen, Germany
index: 5
- name: Faculty of Mathematics and Computer Science, University of Bremen, Germany
index: 6
- name: Certilytics, Inc., Louisville, Kentucky
index: 7
- name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU), Erlangen, Germany
index: 8
- name: Department of Statistics and Finance/International Institute of Finance, School of Management, University of Science and Technology of China, Hefei, Anhui, China
index: 9
- name: School of Environmental and Forest Sciences, University of Washington, Seattle
index: 10
date: XXX December 2024
bibliography: paper.bib
---
Expand Down Expand Up @@ -70,7 +125,7 @@ However, the benefits of `mlr3extralearners` do not stop at mere integration.
One core feature of the `mlr3` ecosystem is that it annotates learners with extensive metadata.
For one, the parameter spaces of learners are defined as parameter sets as defined in the [`paradox` package](https://paradox.mlr-org.com/) [@paradox].
Parameters are explicitly typed, their ranges or list of available values are annotated and this information is used to both check for valid configurations, but also allow for easier parameter tuning.
Furthermore, learners are annotated with respect to their task type (such as classification, regression or survival analysis) and predict type (such as probabilities or class predictions), which feature types they can handle, and which capabilities they have.
Furthermore, learners are annotated with respect to their task type (such as classification, regression or survival analysis [@Sonabend2021]) and predict type (such as probabilities or class predictions), which feature types they can handle, and which capabilities they have.
The latter are standardized via a set of standardized properties, which e.g. includes the ability to do feature selection, to assign importance scores to features, or to handle missing values.

## Functional Correctness
Expand All @@ -92,5 +147,6 @@ The package website contains an [extensive tutorioal](https://mlr3extralearners.

Sebastian Fischer is supported by the Deutsche Forschungsgemeinschaft (DFG, German Research
Foundation) – 460135501 (NFDI project MaRDI).
John Zobolas received funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No 101016851, project PANCAIM.

# References

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