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applicativesystem/README.md
  • I prefer and accept Academics | Scientist | System Administrator | Bioinformatician. Curriculum Vitae | References | Scopus | Web of Science | Frontiers
  • Research areas: Bioinformatics | Deep Learning | System Administration. Lead data analyst/bioinformatician in all the employment. Lead the development/establishment and management of computing clusters.
  • Extremely collaborative,communicative, approachable, motivated, solution oriented, responsive, and initiative taker.
  • All code and ideas concieved and written by me unless specified.
  • Read and write computing data structures and algorithms, and dont use AI as of now.
  • Current: Python, GO, RUST. Dropped C++ 2021
  • In terms of data analysis, i have also used JuliaLang and dropped recently.
  • Deep Learning: PyTorch, Tensorflow, Keras, XGBoost, Scikit-learn, Fastai, Markdown.
  • System Analyst | HPC | Database: Git, Grafana, LDAP, Bash, Systemd, Apptainer, Docker, SQlite3, PostgresSQL, SLURM.
  • Web Develpoment: Shiny/ShinyExpress, Streamlit, Django, Flask, HUGO, HTMx, Axum, Actix, Leptos.
  • 2023-2024: Universitat Potsdam,Germany, benchmarked PacBioHifi and self-learnt GO and RUST including GraphQL,Web-RUST and System Programming (August-December,2024),
  • 2021-2023: Self-learnt Python Machine/Deep learning and System Administration/DevOPS.
  • 2020-2021: Finnish Museum of Natural History, Finland. I completed genome assembly, annotations, markers genes, ITS, and phylogenomics of over 500 fungal species using NextSeq.
  • 2017-2021: Finnish Museum of Natural History, Finland, where I completed pacbio sequencing, assembly, annotations, organelle genomes and evolutionary/phylogenomic/comparative genomics approaches of lower plants Coleochaete orbicularis, Blasia pusilla, Chaetospiridium orbicularis, Polytrichum commune, Mallomonas, and Cryptomonas. Additionally, I worked for collaboration with Edinburgh UK, to analyse the PAFTOL species and the chloroplast genomes of the Ambrosia clade from Norway.
  • 2016-2017: University of Connecticut, USA, where I analyzed the Douglas fir genome from genome annotation to the phylogenomics.
  • 2014–2016: University of Technology, Sydney, Australia, where I developed computational methods for seagrasses.
  • 2011-2014: Fondazione Edmund Mach, Italy, where I developed and analyzed bioinformatics methods for nuclear and organelle genomes, metagenomics from fungal and bacterial both whole genome as well as 16S and ITS sequencing.

Pinned Loading

  1. python-datastructure-algorithms python-datastructure-algorithms Public

    my approach of solving the leetcode, interviewcode and other questions

    Python

  2. python-tairaccession python-tairaccession Public

    python package for arabidopsis genome analysis

    Python

  3. go-alignment go-alignment Public

    a cloud native application for large scale phylogenomics

    Go

  4. rust-samtools-genomeview rust-samtools-genomeview Public

    rust-samtools-genomeview

    Rust

  5. rust-alignment-viewer rust-alignment-viewer Public

    rust embedded approach for genome alignments

    Rust

  6. go-multi-longread-canvas go-multi-longread-canvas Public

    multipattern trimmomatic for long reads

    Go