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codecreatede/README.md

Brief Introduction:

  • Extremely collaborative,communicative, approachable, motivated, solution oriented, responsive, and initiative taker.
  • Open to Scientist | Researcher | Specialist | System Administrator. Curriculum Vitae/Past Employers References
  • I dont use AI for code writing and write at Linux community.
  • If you have listened from me then it has value to you and me and that expresses my interest and willingness and if you have listened from someone else anything fake and not confirmed with me, it has nothing to do with me.
  • I am not responsible for anyone suggesting any personal/work preferences saying that I like that. You can ask me anytime and i will let you know.
  • I dont entertain a single word of listening someone personal preferences/likes/dislikes and neither I accept a personal relation from previous co-authors and nor i am interested in hearing from anyone with whom or whomnot i should work or go around.

Work Areas/Employment: Bioinformatics | Deep Learning | System Administration

  • 2024-: Universitat Potsdam,Germany, self-learnt Julia,GO, benchmarked PacBioHifi and coded Python, Ruby, Julia, GO.
  • 2021-2023: Machine and Deep learning, Devops and self-learnt Python, Web and Application development.
  • 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 conducted 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.

Language Stack:

  • All code and ideas concieved and written by me unless specified.
  • Past:C++(dropped 2021), Now: Bash, R, Ruby, Awk, Python, Julia, GO, RUST.
  • Machine | Deep Learning: PyTorch, Tensorflow, XGBoost, Scikit-learn, Keras, Fastai.
  • Package/API Development | Documentation: Python, Julia, GO, Markdown, MkDocs, Quatro.
  • System Analyst: Git,Terraform, Kubernetes, Grafana, LDAP, Systemd, Apptainer, Docker, Podman.
  • HPC/Database: SQlite3, PostgresSQL, MongoDB, PBS, SLURM, RedHat(Fedora).
  • Web Develpoment: Shiny/ShinyExpress(Python), Streamlit, Django, HUGO, Flask, HTMx.
  • Golang, please see the last commit message for the final release.
  • Golang and RUST binaries Source Forge
  • Glimpse of topic sorted repositories

Pinned Loading

  1. genomeassembly-pacbiohifi genomeassembly-pacbiohifi Public

    pacbioHifi genome assembly benchmarks

    HTML

  2. go-pacbiohifi go-pacbiohifi Public

    profiling pacbiokmers and filtering pacbio kmers

    Go

  3. python-datastructure python-datastructure Public

    my approach of solving the leetcode, interviewcode and other questions

    Python

  4. tairaccession tairaccession Public

    python package for arabidopsis genome analysis

    Python

  5. alignmentGo alignmentGo Public

    a cloud native application for large scale phylogenomics

    Go

  6. go-mapper-diamond go-mapper-diamond Public

    pacbio read alignment, estimating tags and coverage from protein to read mapping

    Go