GARCOM
Gene and Region Counting of Mutations ("GARCOM")
Description
Gene and Region Counting of Mutations (GARCOM) package computes mutation (or alleles) counts per gene per individuals based on gene annotation or genomic base pair boundaries. It comes with features to accept data formats in plink(.raw) and VCF. It provides users flexibility to extract and filter individuals, mutations and genes of interest.
Downloads
221
Last 30 days
22141st
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Last 90 days
2.8K
Last year
Trend: +76.8% (30d vs prior 30d)
0
Last 30 days
24
Last 90 days
91
Last year
Trend: -100% (30d vs prior 30d)
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: ‘Sanjeev Sariya <sanjeevsariya@gmail.com>’ Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
CRAN incoming feasibility
Maintainer: ‘Sanjeev Sariya <sanjeevsariya@gmail.com>’ Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
Check History
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
CRAN incoming feasibility
Maintainer: ‘Sanjeev Sariya <sanjeevsariya@gmail.com>’ Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
CRAN incoming feasibility
Maintainer: ‘Sanjeev Sariya <sanjeevsariya@gmail.com>’ Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
Code & tests
Open call graph →Line coverage
–
Expression
–
Tests / Examples
–
Functions
12 4 exported
Complexity
4.9 avg / 12 max
Call network
12 nodes / 16 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
1,227
Files
32
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
4
Internal functions
8
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.17
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
50%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
Yes
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
66.7%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
3
First release
2020-10-16
Latest release
2022-12-23
Avg cadence
399 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.