geneviewer
Gene Cluster Visualizations
Description
Provides tools for plotting gene clusters and transcripts by importing data from GenBank, FASTA, and GFF files. It performs BLASTP and MUMmer alignments [Altschul et al. (1990) <doi:10.1016/S0022-2836(05)80360-2>; Delcher et al. (1999) <doi:10.1093/nar/27.11.2369>] and displays results on gene arrow maps. Extensive customization options are available, including legends, labels, annotations, scales, colors, tooltips, and more.
Downloads
341
Last 30 days
13014th
825
Last 90 days
3.6K
Last year
Trend: +51.6% (30d vs prior 30d)
0
Last 30 days
26
Last 90 days
121
Last year
Trend: -100% (30d vs prior 30d)
12
Last 7 days
24
Last 30 days
4
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 7, 2026
examples
Running examples in ‘geneviewer-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: GC_labels
> ### Title: Add Labels to Each Cluster in a GC Chart
> ### Aliases: GC_labels
>
> ### *
...[truncated]...
4-2.0.4', reason 'No space left on device'
Error in normalizePath(target_dir, "/", TRUE) :
path[1]="lib/FileSaver-2.0.4-2.0.4": No such file or directory
Calls: <Anonymous> ... lapply -> FUN -> copyDependencyToDir -> normalizePath
Execution halted
OK 12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Apr 25, 2026
NOTE 13 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
package dependencies
Package suggested but not available for checking: ‘pwalign’
Code
Structure
Lines of code
9,448
Files
90
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
34
Internal functions
35
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.19
testthat edition
3
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
25.8%
Roxygen coverage
97.1%
Has pkgdown
No
NEWS present
Yes
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
2
Dep constraint coverage
0%
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
2
First release
2025-01-10
Latest release
2025-10-01
Avg cadence
264 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.