tripr
Bioc currentT-cell Receptor/Immunoglobulin Profiler (TRIP)
Release Lineage
Entered 3.14 · Oct 27, 2021
Current · Requires R 4.6
Description
TRIP is a software framework that provides analytics services on antigen receptor (B cell receptor immunoglobulin, BcR IG | T cell receptor, TR) gene sequence data. It is a web application written in R Shiny. It takes as input the output files of the IMGT/HighV-Quest tool. Users can select to analyze the data from each of the input samples separately, or the combined data files from all samples and visualize the results accordingly.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
38 2 exported
Complexity
47.6 avg / 777 max
Call network
38 nodes / 49 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
18,119
Files
87
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
2
Internal functions
36
Testing
Has tests
Yes
Test-to-code ratio
0.01
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
13.6%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2021-10-26
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 3includes a package overview page
- Examples that run
- 100%2 run in a plain check (1 of them under a condition)
- Exported functions with examples
- 100%
- Documented parameters
- 80%
- Return-value docs
- 100%
- Help pages citing references
- 0%
- tripr User Guide HTML
Repository practices
1 development-tooling and community-health practice detected across 1 family in the upstream repository
Checks run against github.com/biodataanalysisgroup/tripr on 2026-10-18.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| 10_V-REGION-mutation-hotspots | – | – | – |
| 11_Parameters | – | – | – |
| 1_Summary | – | – | – |
| 2_IMGT-gapped-nt-sequences | – | – | – |
| 3_Nt-sequences | – | – | – |
| 4_IMGT-gapped-AA-sequences | – | – | – |
| 5_AA-sequences | – | – | – |
| 6_Junction | – | – | – |
| 7_V-REGION-mutation-and-AA-change-table | – | – | – |
| 8_V-REGION-nt-mutation-statistics | – | – | – |
| 9_V-REGION-AA-change-statistics | – | – | – |
| Germline_sequences_alignments_IGHV_aa | data.frame | 385 × 108 | No other package |
| Germline_sequences_alignments_IGHV_nt | data.frame | 383 × 323 | No other package |
| Germline_sequences_alignments_IGKV_aa | data.frame | 90 × 113 | No other package |
| Germline_sequences_alignments_IGKV_nt | data.frame | 90 × 338 | No other package |
| Germline_sequences_alignments_IGLV_aa | data.frame | 104 × 117 | No other package |
| Germline_sequences_alignments_IGLV_nt | data.frame | 104 × 351 | No other package |
| README | – | – | – |
| used_columns | – | – | – |
| used_columns_only_useful | data.frame | 13 × 43 | No other package |
Topics
People
- Nikolaos Pechlivanis maintainer
- Andreas Agathangelidis author
- Anastasia Chatzidimitriou author
- Chrysi Galigalidou author
- Katerina Gemenetzi author
- Maria Th. Kotouza author
- Pericles A. Mitkas author
- Iason Ofeidis author
- Aspasia Orfanou author
- Fotis E. Psomopoulos author
- Raphael Sandaltzopoulos author
- Kostas Stamatopoulos author
- Elisavet Vlachonikola author
Cite
Cite this package
Run in R for the authors' entry:
citation("tripr")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1186/s12859-020-03669-1.
The repository also keeps a CITATION.cff.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.