Our skills concerning biological datasets include:

• de novo genome (including plants) assembly and annotation (input: RNA-seq, DNA-seq)
• differential gene expression analysis (input: RNA-seq, small RNA-seq) and the downstream network analysis
• corrections for batch effects
• data quality analysis
• phylogenetics
• predictions of protein-protein interactions
• set up of high-quality orthogroups
• variant (SNPs, indels) calling
• annotation of repeats, retroviruses, and transposable element
• analysis concerning bisulfite modification (epigenetics, 5-meC tracking)
• correlation studies
• combinatorics (for example, to predict the smallest set of markers to distinguish plant cultivars)
• custom-design sets for RT-qPCR
• basic statistics and data visualization

General skills:

• custom made script design (bash, R, python)
• regular expressions (Perl)
• technical reports (latex)
• online data visualization (R shiny)