coxstream

0.1.0

Memory-Efficient Cox Proportional Hazards via Streaming Newton-Raphson

0packages depend

401downloads / year

88.2%test coverage

13/13checks pass

Overview

About

Maintained by Tommy CarstensenFirst published 2026-06-201 releasesCRAN page ↗GitHub ↗

Fits the Cox proportional hazards model using a single descending-order pass per Newton-Raphson iteration. Peak RAM is O(p^2) regardless of the number of rows, making it suitable for datasets that do not fit in memory. Produces identical coefficients to survival::coxph() with Efron tie correction.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("coxstream", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("tommycarstensen/coxstream-r")

Development version from tommycarstensen/coxstream-r. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-coxstream

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-coxstream

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-coxstream

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 2.4 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.27

88.2%

Coverage · measured lines

100%

Documentation · exports

None

Vignettes

Yes

README

Dependencies · direct

Check history

OK2026-06-21
6 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Downloads

401

CRAN downloads in the past year

Rank #23,885 · ~1/day · ~33/mo

Releases R versions

Daily download trend is not available in this view yet.

40130 days

40190 days

4011 year

Compare downloads with other packages →

Also on11 r2u2 autocran

Repository

GitHub ↗ tommycarstensen/coxstream-r

0Stars

0Forks

0Open issues

0Open PRs

1Releases

2Commits

1Contributors

2 commits · Last activity 2026-06-14

Releases over time

2026-06-14 · 12026-07-07 · 1

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (2)

Rcppsurvival

LinkingTo (1)

Rcpp

Suggests (2)

arrow testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

C++ 553 (46%)R 418 (34%)Rd 151 (12%)C 93 (8%)

Code characteristics

Object systems

S33

Cyclomatic complexity: 1.0 median / 10 max
Test cases: 6 / 0.27 per code line
Documented parameters: 100%

Test coverage

Line coverage

88%

Expression

89.2%

Tests / Examples

88.2% / 28% ex

Functions

22 2 exported

Complexity

2.4 avg / 10 max

Call network

22 nodes / 9 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

22 functions

Function	Cyclo	Coverage
print.coxstream	1	0%
coxstream_arrow exp	10	91%
coxstream exp	5	98%
coef.coxstream	1	100%
vcov.coxstream	1	100%

People & History

People (2)

Maintainer (1)

Tommy Carstensen

Author, Maintainer

Authors (1)

Tommy Carstensen

Author, Maintainer

Contributors (1)

Apache Software Foundation

Release timeline

1 release. R releases are shown for context.

0.1.0Latest
2026-06-20 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-06-20
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet