- I work as Academic Staff Member at Bioinformatics, Institute for Biochemistry and Biology at Universtat Potsdam(UP) and Group 🇩🇪
- I work at the interface of both academics as well as developing applications from client side rendering.
- You can contact me at [email protected]
- If you want to contact me on Gmail, you can use [email protected]
- Communicative, approachable, motivated, task and solution oriented, time responsive, and initiative taker.
- Pro-active in making communication and upskilling on emerging trends.
- Proficient in developing new approaches for code development and have been coding for more than 14 years.
- 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
- Curriculum vitae here: Covering Letter Curriculum Vitae, Scopus, ORCID, and Web of Science
- Employers references Previous Employers.
- Open to collaboration on Bioinformatics, Deep Learning, Generative AI, and DevOPs.
- Very collaborative and open to supporting those who support me.
- Not attached to any specific programming language and I select the programming language according to the work specifics.
- Dont waste your time if i havent talked or even talked once in years, i dont even remember your face.
- All code and ideas concieved by me unless specified.
Bioinformatics
- Plant, bacterial and fungal genomes, transcriptomes, organelle, metagenomics and phylogenomics.
- Illumina, PacBio, Oxford Nanopore, PacBioHifi, HiC
- Data Analysis Programming specifics: Python, R, Ruby, Awk, Shell, Nextflow, Snakemake, MATLAB, Julia
- Web Development Programming specifics: Python, Javascript, Ruby on Rails, Django, HTML and CSS.
Deep Learning, RAG, Language Models and Graphs.
- PyTorch, Tensorflow, CatBoost, XGBoost, Sklearn, Keras, LightGBM, fastai and others.
- Data Analysis Programming specifics: Python, R, MATLAB, learning Julia and graphsAPI
- Web Development Programming specifics: Python, Javascript, Ruby on Rails, Django, HTML and CSS, Julia
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
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
Streamlit: Streamlit Applications and Streamlit Community
Name | Description | URL |
---|---|---|
streamlit-pacbiohifi | pacbiohifi sequencing information | streamlit-pacbiohifi |
streamlit-Univeristat-Potsdam | web application for Universitat Potsdam | slurm-applicator |
streamlit-ontology-graphs | analyzing arabidopsis ontologies and plant obo | ontology-graphs |
streamlit-metabolic-json | analyzing BIGG metabolic models | metabolic-app |
streamlit-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_creator | 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
Nname | Description | URL |
---|---|---|
evoseq | genome annotation visualization, phylogeny | evoseq, subfunction genomevisual |