biospear
Biomarker Selection in Penalized Regression Models
Description
Provides some tools for developing and validating prediction models, estimate expected survival of patients and visualize them graphically. Most of the implemented methods are based on penalized regressions such as: the lasso (Tibshirani R (1996)), the elastic net (Zou H et al. (2005) <doi:10.1111/j.1467-9868.2005.00503.x>), the adaptive lasso (Zou H (2006) <doi:10.1198/016214506000000735>), the stability selection (Meinshausen N et al. (2010) <doi:10.1111/j.1467-9868.2010.00740.x>), some extensions of the lasso (Ternes et al. (2016) <doi:10.1002/sim.6927>), some methods for the interaction setting (Ternes N et al. (2016) <doi:10.1002/bimj.201500234>), or others. A function generating simulated survival data set is also provided.
Downloads
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Last 90 days
3K
Last year
Trend: +31.2% (30d vs prior 30d)
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Last 30 days
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Last 90 days
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Last year
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CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (2 non-OK)
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
person(given = "Federico",
family = "Rotolo",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
person(given = "Federico",
family = "Rotolo",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
Check History
NOTE 11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Jun 9, 2026
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
...[truncated]...
o",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
...[truncated]...
o",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
ERROR 11 OK · 1 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Jun 8, 2026
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
...[truncated]...
o",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
...[truncated]...
o",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
...[truncated]...
o",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Stefan Michiels <stefan.michiels@gustaveroussy.fr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Nils",
family = "Ternes",
role = "aut"),
...[truncated]...
o",
role = "aut"),
person(given = "Stefan",
family = "Michiels",
role = c("aut", "cre"),
email = "stefan.michiels@gustaveroussy.fr"))
as necessary.
Code
Structure
Lines of code
4,215
Files
35
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
6
Internal functions
29
Recent export changes
Testing & CI
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
No
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
6
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
2.10
System requirements
–
C++ standard
–
License
GPL-2
License flags
SPDX valid, OSI approved
History
Versions
3
First release
2017-05-13
Latest release
2018-12-04
Avg cadence
285 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/cran-code-metrics.