Package: TCRconvertR 1.0

Emma Bishop

TCRconvertR: Convert TCR Gene Names

Convert T Cell Receptor (TCR) gene names between the 10X Genomics, Adaptive Biotechnologies, and ImMunoGeneTics (IMGT) nomenclatures.

Authors:Emma Bishop [aut, cre, cph]

TCRconvertR_1.0.tar.gz
TCRconvertR_1.0.zip(r-4.7-any)TCRconvertR_1.0.zip(r-4.6-any)TCRconvertR_1.0.zip(r-4.5-any)
TCRconvertR_1.0.tgz(r-4.6-any)TCRconvertR_1.0.tgz(r-4.5-any)
TCRconvertR_1.0.tar.gz(r-4.7-any)TCRconvertR_1.0.tar.gz(r-4.6-any)
TCRconvertR_1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
TCRconvertR/json (API)

# Install 'TCRconvertR' in R:
install.packages('TCRconvertR', repos = c('https://seshadrilab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/seshadrilab/tcrconvertr/issues

Pkgdown/docs site:https://seshadrilab.github.io

On CRAN:

Conda:

5.26 score 6 stars 5 scripts 297 downloads 11 exports 1 dependencies

Last updated from:3465ddbff2. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK122
source / vignettesOK183
linux-releaseOK93
macos-releaseOK154
macos-oldrelOK192
windows-develOK63
windows-releaseOK63
windows-oldrelOK64
wasm-releaseOK87

Exports:add_dash_onebuild_lookup_from_fastaschoose_lookupconvert_geneextract_imgt_genesget_example_pathpad_single_digitparse_imgt_fastaparse_mixcr_csvsave_lookupwhich_frm_cols

Dependencies:rappdirs

Get started
Installation | Basic usage | 1. Load TCRs into a data frame | 2. Convert | AIRR data | Custom column names | Rhesus or mouse data
Rendered fromTCRconvertR.Rmdusingknitr::rmarkdown

Last update: 2025-04-23
Started: 2025-03-07

Using a custom species
1. Create a folder of IMGT FASTA files | 2. Run build_lookup_from_fastas()
Rendered fromcustom-species.Rmdusingknitr::rmarkdown

Last update: 2025-03-07
Started: 2025-03-07