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cff-version: 1.2.0
message: 'To cite package "tTEscanR" in publications use:'
type: software
license: MIT
title: 'tTEscanR: A user-friendly integrative R package for quantifying and visualizing
  translation efficiency from sequencing data in diverse biological systems'
version: 0.99.2
abstract: Translation elongation is dependent on codon-anticodon interactions, with
  suitable nucleotide pairing being essential for efficient translation. To quantify
  this relationship, we previously developed a computational pipeline (GitHub - wgao688/sc_tRNA_mRNA)
  that uses mRNA codon usage relative to tRNA anticodon availability as a proxy for
  theoretical translation efficiency (tTE). Here, we introduce tTEscanR, a powerful
  and user-friendly R-based package that extends this approach to quantify translation
  efficiency from both bulk and single-cell sequencing data. tTEscanR is a versatile
  tool for exploring translation efficiency in diverse cellular processes, disease
  mechanisms, and therapeutic development. It also features an advanced visualization
  module to generate high-quality plots, enhancing result interpretation and communication.
authors:
- family-names: Varas-Sánchez
  given-names: Ana
  email: ana.varas@scilifelab.se
  orcid: https://orcid.org/0009-0006-0187-8968
- family-names: Gallardo-Dodd
  given-names: Carlos
  email: carlos.gallardo@scilifelab.se
  orcid: https://orcid.org/0000-0002-6086-0550
- family-names: Gao
  given-names: William
  email: william.gao@pennmedicine.upenn.edu
  orcid: https://orcid.org/0000-0002-9415-331X
repository: https://bioc.r-universe.dev
repository-code: https://github.com/avarassanchez/tTEscanR
commit: 81c54570a5ed2aa4f23863cadd318d0f23c286c6
url: https://github.com/avarassanchez/tTEscanR
date-released: '2026-10-16'
contact:
- family-names: Varas-Sánchez
  given-names: Ana
  email: ana.varas@scilifelab.se
  orcid: https://orcid.org/0009-0006-0187-8968