Development and evaluation of new mask protocols for gene expression profiling in humans and chimpanzees. - Donna M. Toleno; Gabriel Renaud; Tyra G. Wolfsberg; Munirul Islam; Derek E. Wildman; Kimberly D. Siegmund; Joseph G. Hacia (BMC Bioinform., 2009)

Identical sequence patterns in the ends of exons and introns of human protein-coding genes. - Raphael Tavares; Gabriel Renaud; Paulo Sergio Lopes Oliveira; Carlos G. Ferreira; Emmanuel Dias-Neto; Fabio Passetti (Comput. Biol. Chem., 2012)

freeIbis: an efficient basecaller with calibrated quality scores for Illumina sequencers. - Gabriel Renaud; Martin Kircher; Udo Stenzel; Janet Kelso (Bioinform., 2013)

trieFinder: an efficient program for annotating digital gene expression (DGE) tags. - Gabriel Renaud; Matthew C. LaFave; Jin Liang; Tyra G. Wolfsberg; Shawn M. Burgess (BMC Bioinform., 2014)

deML: robust demultiplexing of Illumina sequences using a likelihood-based approach. - Gabriel Renaud; Udo Stenzel; Tomislav Maricic; Victor Wiebe; Janet Kelso (Bioinform., 2015)

gargammel: a sequence simulator for ancient DNA. - Gabriel Renaud; Kristian Hanghøj; Eske Willerslev; Ludovic Orlando (Bioinform., 2017)

glactools: a command-line toolset for the management of genotype likelihoods and allele counts. - Gabriel Renaud (Bioinform., 2018)

A likelihood method for estimating present-day human contamination in ancient male samples using low-depth X-chromosome data. - José Víctor Moreno-Mayar; Thorfinn Sand Korneliussen; Jyoti Dalal; Gabriel Renaud; Anders Albrechtsen; Rasmus Nielsen; Anna-Sapfo Malaspinas (Bioinform., 2020)

HaploCart: Human mtDNA haplogroup classification using a pangenomic reference graph. - Joshua Daniel Rubin; Nicola Alexandra Vogel; Shyam Gopalakrishnan; Peter Wad Sackett; Gabriel Renaud (PLoS Comput. Biol., 2023)

Benchmarking software tools for trimming adapters and merging next-generation sequencing data for ancient DNA. - Annette Lien; Leonardo Pestana Legori; Louis Kraft; Peter Wad Sackett; Gabriel Renaud (Frontiers Bioinform., 2023)