Estimation and assessment of raw copy numbers at the single locus level. - Henrik Bengtsson; Rafael A. Irizarry; Benilton S. Carvalho; Terence P. Speed (Bioinform., 2008)

Estimating Genome-Wide Copy Number Using Allele-Specific Mixture Models. - Wenyi Wang 001; Benilton S. Carvalho; Nathaniel D. Miller; Jonathan Pevsner; Aravinda Chakravarti; Rafael A. Irizarry (J. Comput. Biol., 2008)

R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. - Matthew E. Ritchie; Benilton S. Carvalho; Kurt N. Hetrick; Simon Tavaré; Rafael A. Irizarry (Bioinform., 2009)

A framework for oligonucleotide microarray preprocessing. - Benilton S. Carvalho; Rafael A. Irizarry (Bioinform., 2010)

Quantifying uncertainty in genotype calls. - Benilton S. Carvalho; Thomas A. Louis; Rafael A. Irizarry (Bioinform., 2010)

Performance assessment of copy number microarray platforms using a spike-in experiment. - Eitan Halper-Stromberg; Laurence Frelin; Ingo Ruczinski; Robert B. Scharpf; Chunfa Jie; Benilton S. Carvalho; Haiping Hao; Kurt N. Hetrick; Anne Jedlicka; Amanda Dziedzic; Kim Doheny; Alan F. Scott; et al. (Bioinform., 2011)

Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips. - Matthew E. Ritchie; Ruijie Liu; Benilton S. Carvalho; Rafael A. Irizarry (BMC Bioinform., 2011)

The challenges of delivering bioinformatics training in the analysis of high-throughput data. - Benilton S. Carvalho; Gabriella Rustici (Briefings Bioinform., 2013)

Working with Oligonucleotide Arrays. - Benilton S. Carvalho (Statistical Genomics, 2016)

HPexome: An automated tool for processing whole-exome sequencing data. - Lucas L. Cendes; Welliton de Souza; Iscia Lopes-Cendes; Benilton S. Carvalho (SoftwareX, 2020)

A field guide to cultivating computational biology. - Anne E. Carpenter; Casey S. Greene; Piero Carnici; Benilton S. Carvalho; Michiel de Hoon; Stacey D. Finley; Kim-Anh Lê Cao; Jerry S. H. Lee; Luigi Marchionni; Suzanne Sindi; Fabian J. Theis; Gregory P. Way; et al. (CoRR, 2021)