R Observatory: Metrics for strawr version 0.0.92

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

strawr

0.0.92Package record

Fast Implementation of Reading/Dump for .hic Files

0packages depend

19.7Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Neva Cherniavsky DurandCRAN page ↗GitHub ↗

API for fast data extraction for .hic files that provides programmatic access to the matrices. It doesn't store the pointer data for all the matrices, only the one queried, and currently we are only supporting matrices (not vectors).

Install

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

install.packages("strawr", 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("aidenlab/straw")

Development version from aidenlab/straw. 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-strawr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-strawr

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-strawr

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 4.1 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25
NOTE13 OK, 1 NOTE2026-04-22
ERROR12 OK, 1 NOTE, 1 ERROR2026-04-18

Show 1 earlier changeHide 1 earlier change

NOTE13 OK, 1 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.0.92

READMEYes · 16 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 5includes a package overview page
Examples that run: 100%4 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

19.7K

CRAN downloads in the past year

Rank #3,266 · ~54/day · ~1.6K/mo

Releases R versions

Daily download trend is not available in this view yet.

1.1K30 days

3.6K90 days

19.7K1 year

Compare downloads with other packages →

Also on526 r2u4 autocran5.3K conda_forge

How downloads are counted

Repository

aidenlab/straw ↗Organization: aidenlab

70Stars

35Forks

31Open issues

1Open PRs

3Releases

420Commits

23Commit identities

License file reads as MIT · 420 commits · Last activity 2025-04-06

Responsiveness

How these are sampled

PRs merged (all time): 90%
Median days to close, 50 most recently updated closed issues: 2
Median days to close, 50 most recently updated closed PRs: 0

Issues over time

2026-07-11 · 332026-07-14 · 31

How these are measured

PracticesBeta

4 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/aidenlab/straw on 2026-10-21.

Governance and community (3)

Code of conductContributing guideIssue templates

Lint, format, editor (1)

JetBrains/.idea

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing strawr adds 1 package (1 with compiled code, 1.8 MB of source tarballs). Heaviest: Rcpp 1.8 MB.

Depends (1)

R >= 3.4.0

Imports (1)

Rcpp

LinkingTo (1)

Rcpp

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (3)

Neva Cherniavsky Durand

Author, Maintainer since 0.0.8 (2021)

Muhammad Saad Shamim

Author

Aiden Lab

Copyright holder

Listed in earlier versions (2)

Neva Cherniavsky

no longer listed · 0.0.8 to 0.0.92

Muhammad Saad

no longer listed · 0.0.8 to 0.0.92

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.0.92Latest
record
2024-07-17 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.0.91
record
2023-03-29 · diff ↗ ·
added 1 export
readHicNormTypes
R
R 4.2.0 released · 2022-04-22
0.0.9
record
2021-09-13 · diff ↗
0.0.8
record
2021-06-25
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-06-25
Total releases: 4 / 5 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.4.0
Download size: 751 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("strawr")

Format

Cherniavsky Durand, N., Aiden Lab, & Shamim, M. S. (2024). strawr: Fast Implementation of Reading/Dump for .hic Files (Version 0.0.92) [Computer software]. https://doi.org/10.32614/CRAN.package.strawr

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for strawr version 0.0.92 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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