- I work as Academic Staff Member at Institute for Biochemistry and Biology at Universtat Potsdam(UP) 🇩🇪
- I work at the interface of both academics as well as developing applications.
- Covering Letter Curriculum Vitae, Scopus, ORCID, and Web of Science
- Employers references.
- Contact me at [email protected] / [email protected]
- Communicative, approachable, motivated, task and solution oriented, time responsive, and initiative taker.
- All code and ideas concieved by me unless specified.
- I learn quickly what is required and i am an applicative person.
- Proficient in developing new approaches for code development.
- I read, code and plan well ahead as to have a planned approach of problem solving.
- Prefer onsite work but also open to work in a hybrid environment.
- Active time and project based approaches and solving limitations.
- Voracious reader of language model implementations language-models
- Open to collaboration on Bioinformatics, Deep Learning, Language Deep models, and DevOPs.
- Very collaborative and open to supporting those who support me.
- Not attached to any specific programming language and select according to the work specifics and needs.
- Believe in not wasting time at any aspect Please read this to save your time
- I dont code anymore in C and C++ and since start have been doing time based programming to increase my speed and efficiency.
Professional Aptitude
- I read scientific aptitude to increase my work potential for continous development:
- I think very precisely before speaking as what has spoken cant be fetched back.
- Pro-active in making effective communication as communication leads to result oriented approaches.
- Bring your skills to the work and show them as that will raise your value.
- I raise my value and respect those who respect my skills and value.
- If there is no outcome or visbility means that there is no existence and baseless and non-existence words have no value.
- There is no limit but if you put your efforts right, everyday you see a new skill added.
- Effectively work with those, who talk to you and not other way around. Indirect approaches never generate results.
Bioinformatics
- Plant, bacterial and fungal genomes, transcriptomes, organelle, metagenomics and phylogenomics.
- Illumina, PacBio, Oxford Nanopore, PacBioHifi, HiC
- Data Analysis Programming specifics: Python, R, Ruby, MATLAB, Julia
- Web Development Programming specifics: Python, Javascript, Ruby on Rails, Django, HTML and CSS.
- Server Management and Command Line Data Management: Awk, Shell, Nextflow
- Database Management Specifics: MySQL, MongoDB.
- Documentation Programming specifics: Markdown, ReadTheDocs, MkDocs, Jekyll, Github Pages
Deep Learning, RAG, Language Models and Graphs.
- PyTorch, Tensorflow, CatBoost, XGBoost, Sklearn, Keras, LightGBM, fastai and others.
- Data Analysis Programming specifics: Python, R, MATLAB, Julia
- Web Development Programming specifics: Python, Javascript, Ruby on Rails, Django, HTML and CSS, Julia
- Database Management Specifics: MySQL, MongoDB.
- Documentation Programming specifics: Markdown, ReadTheDocs, MkDocs, Jekyll, Github Pages
DevOPs
- Git,GitKraken,Docker,Kubernetes,Terraform for code management and container orchestration.
- Programming specifics: Shell, NuShell, Awk, Python
- PBS and SLURM as job scheduler
- Heroku and Docker for application deployment
- Database Management Specifics: MySQL, MongoDB.
- Documentation Programming specifics: Markdown, ReadTheDocs, MkDocs, Jekyll, Github Pages
Web Develpoment
- Programming specifics: Ruby on Rails, Streamlit, Python Shiny and ShinyExpress, Django, BootStrap, Julia, HTML, Javascript
- Format: jinja and jinja2, jq, yq
- Database Management Specifics: MySQL, MongoDB.
- Documentation Programming specifics: Markdown, ReadTheDocs, MkDocs, Jekyll, Github Pages
Streamlit: Streamlit Applications and Streamlit Community
| Name | Description | URL |
|---|---|---|
| Pacbiohifi | pacbiohifi sequencing information | streamlit-pacbiohifi |
| Univeristat-Potsdam | web application for Universitat Potsdam | slurm-applicator |
| Ontology-graphs | analyzing arabidopsis ontologies and plant obo | ontology-graphs |
| Metabolic-json | analyzing BIGG metabolic models | metabolic-app |
| Metabolic-analyzer | API to BIGG database models | metabolic-analyzer |
Ruby Gems: Ruby gems, Ruby app and Ruby Community: released and development version
| Name | Description | URL |
|---|---|---|
| Devopsutils | devops system configuration | devops_system_profiler |
| Ruby-template | ruby templating | ruby template creator |
| Fasta-tokenizer | fasta tokenizer and motif indexer | fasta_tokenizer |
| Panacheextract | snp extractor | panacheextract |
| Fluxmodels | flux models | fluxmodels |
| Protalign | protein alignment analyzer | protein-alignment-gem and proteinmultialign |
| Pacbiohifi-analyzer | pacbio hifi data from reads to graphs | pacbiohifi-analyzer |
Python Package: Python Packages and Python Community: building development release version
| Name | Description | URL |
|---|---|---|
| Tairaccession | python package for interacting with tair | tairaccession |
| Graphanalyzer | python package for graph alignment tools | graphanalyzer |
| Rnaprocessor | python package for sequence based machine learning | rnaprocessor |
| Protein-annotator | python package for genome-protein alignments | protein-annotator |
| Ontologyanalyzer | python package ontologies using the semantic web | ontologyanalyzer |
R package: R package and Bioconductor and Posit community: building development release version
| Name | Description | URL |
|---|---|---|
| Evoseq | genome annotation visualization, phylogeny | evoseq, subfunction genomevisual |