The Bioinformatics area supports the experimental activities at the institute by applying and developing bioinformatics methods and algorithms for the analyses of complex datasets. The rapid advancement and broad adoption of next generation sequencing (NGS) has placed genomics and transcriptomics as one of the main research activities. The Bioinformatics area develops databases, bioinformatics software and data management solutions on-demand.
R Data Analysis
- Formatting and combination of ggplot2 Graphs
- Statistical analysis (PCA, correlation, clustering, etc.)
- ad hoc packages and function development
- Sequences management
- Bulk Genome download
Alineamientos y búsqueda de Homólogos
- Online BLAST
- Stand-alone BLAST (offline version)
- All versus all BLAST
- Bidirectional best hit
- PSI BLAST
- Pangenome and core
- Protein and domain proteins search with HMMER
RNASeq
- De novo
- Reads mapping
- Count tables
- DESeq2 analysis
- General experiment data analysis
- Coexpression
Phylogenetic Analysis
- Multilocus Sequence Analysis
- Conserved genes trees
- Protein family trees
- Average Nucleotide Identity
Genomics
- De novo Assembly with Reference Genome
- Quality Control
- Annotation (RAST, Prokka, Blast2GO, AUGUSTUS, etc.)
Others
- Installation, administration, and use of Linux Operative Sistems with Command Lines Tools (bash, ssh, vim, tmux, etc.)
- HCP CLUSTER CCT Usage (http://cluster.rosario-conicet.gov.ar)
- Functional Genome Clustering
- Remote Software Installation
Softwares:
- RAxML
- Clustal
- mafft
- gBlock
- OthoANI
- HMMER
- PhyloLM
- ITOL
- Mauve
- MEGA
Resposible: CPA-Profesional Asistente Mariano Torres Manno
Mariano joined CEFOBI in November 2021
Contact: torresmanno@cefobi-conicet.gov.ar
