Name: Fabrício Almeida-Silva
Type: User
Company: VIB-UGent Center for Plant Systems Biology
Bio: Bioinformatics. Network biology. Plant genomics and evolution. #rstats addict.
Twitter: almeidasilvaf
Location: Technologiepark 71, Ghent, Belgium
Blog: https://almeidasilvaf.github.io
Fabrício Almeida-Silva's Projects
Personal website and blog
An R package to create gene expression atlases from bulk RNA-seq data on NCBI SRA
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor
Slides for the Lightning Talk at Bioc2021
Easy and comprehensive biological network reconstruction and analysis
Repo to store comments in my blog posts
Candidate Gene Miner
Benchmarking cageminer efficiency
An R package to perform systematic quality checks on comparative genomics analyses
Data and code associated with the paper "Assessing the quality of comparative genomics data and results with the cogeqc R/Bioconductor package"
Written materials for the course "Introduction to Computational Evolutionary Biology"
Slides for my CONPG presentation
Slides for the course "Processing and visualizing data in the tidyverse"
An R package to identify and classify duplicated genes from whole-genome protein sequence data
Code and data associated with the paper "doubletrouble: an R/Bioconductor package for the identification, classification, and analysis of gene and genome duplications"
A dashboard to explore and download the duplicated gene repertoire in eukaryote species
Material for the workshop "Inference and Analysis of Synteny Networks with syntenet", presented at EuroBioc2022
An R package to compute expression divergence metrics
May 2021.
Code and data associated with the paper "Pathogenesis-related protein 1 (PR-1) genes in soybean: genome-wide identification, structural analysis and expression profiling under multiple biotic and abiotic stresses"
An R package for comparative transcriptomic analyses of hybrids and their progenitors
Data and code associated with the paper "HybridExpress: an R/Bioconductor package for comparative transcriptomic analyses of hybrids and their progenitors"
R solutions for the exercises in "Introduction to Quantitative Genetics", by DS Falconer.
Motif analysis in gene regulatory networks
Slides for presentations in Msc. classes
Materials for the course "Network Analysis in R"
Materials for the course "Network Analysis in Systems Biology with R/Bioconductor"
Solutions for the practice problems in the book "Phylogenetic Comparative Methods in R", by Liam Revell and Luke Harmon
Code to obtain genome data in the Plant Genomes dashboard