FastJM
Semi-Parametric Joint Modeling of Longitudinal and Survival Data
Description
Implements scalable joint models for large-scale competing risks time-to-event data with one or multiple longitudinal biomarkers using the efficient algorithms developed by Li et al. (2022) <doi:10.1155/2022/1362913> and <doi:10.48550/arXiv.2506.12741>. The time-to-event process is modeled using a cause-specific Cox proportional hazards model with time-fixed covariates, while longitudinal biomarkers are modeled using linear mixed-effects models. The association between the longitudinal and survival processes is captured through shared random effects. The package enables analysis of large-scale biomedical data to model biomarker trajectories, estimate their effects on event risks, and perform dynamic prediction of future events based on patients' longitudinal histories. Functions for simulating survival and longitudinal data for multiple biomarkers are included, along with built-in example datasets. The package also supports modeling a single biomarker with heterogeneous within-subject variability via functionality adapted from the 'JMH' package.
Downloads
602
Last 30 days
5946th
1.8K
Last 90 days
4.9K
Last year
Trend: +1.9% (30d vs prior 30d)
24
Last 30 days
130
Last 90 days
544
Last year
Trend: -45.5% (30d vs prior 30d)
0
Last 7 days
13
Last 30 days
0
All-time
autoCRAN-only: this name is served only by autoCRAN, so the count is exact.
CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| 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 History
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Jun 9, 2026
ERROR 12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Jun 8, 2026
package dependencies
Packages required but not available: 'caret', 'pec' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE May 2, 2026
ERROR 11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 25, 2026
package dependencies
Package required but not available: ‘caret’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Apr 22, 2026
installed package size
installed size is 83.8Mb
sub-directories of 1Mb or more:
libs 83.1Mb
installed package size
installed size is 102.8Mb
sub-directories of 1Mb or more:
libs 101.7Mb
ERROR 11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 18, 2026
whether package can be installed
Installation failed. See 'd:/Rcompile/CRANpkg/local/4.6/FastJM.Rcheck/00install.out' for details.
installed package size
installed size is 83.8Mb
sub-directories of 1Mb or more:
libs 83.1Mb
installed package size
installed size is 102.8Mb
sub-directories of 1Mb or more:
libs 101.7Mb
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
installed package size
installed size is 83.8Mb
sub-directories of 1Mb or more:
libs 83.1Mb
installed package size
installed size is 85.4Mb
sub-directories of 1Mb or more:
libs 84.7Mb
Code & tests
Open call graph →Line coverage
–
Expression
–
Tests / Examples
–
Functions
314 15 exported
Complexity
6.8 avg / 116 max
Call network
314 nodes / 424 edges
Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.
Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
31,290
Files
188
Compiled share
55.3%
Has compiled src
Yes
Language breakdown
API
Exported functions
15
Internal functions
164
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
3
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
66.7%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
Yes
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
100%
Unsafe pattern score
0
Dep constraint coverage
14.3%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
GPL (>= 3)
License flags
SPDX valid, OSI approved
History
Versions
16
First release
2022-01-06
Latest release
2026-03-28
Avg cadence
66 days
Cold removal rate
100%
Dep drift
13
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/cran-code-metrics.