gauravcodepro Goto Github PK

• I'm based in Germany as Academic Staff Member at Bioinformatics, Institute for Biochemistry and Biology at Universtat Potsdam(UP) and Group 🇩🇪
• Progress thrives on the exchange of knowledge. (Albert Einstein)
• Fortune favours the prepared mind. (Louis Pasteur)
• 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.
• Bioinformatics: genomes, transcriptomes, organelle, metagenomes and metatranscriptomes, phylogenome analysis.
• Species: plant, bacterial and fungal.
• Sequencing platform Illumina, PacBio, Oxford Nanopore, PacBioHifi, HiC
• Deep learning: PyTorch, Tensorflow, CatBoost, XGBoost, Sklearn, Keras and other deep learning.
• DevOPs: Git,Docker,Kubernetes and Terraform for container orchestration.
• Generative AI and Graphs.
• You can read the curriculum vitae here: Curriculum Vitae, Scopus, ORCID, and Web of Science
• You can read the previous employers references and what they say about me Previous Employers.
• Open to collaboration on Bioinformatics, Deep Learning, Generative AI, and DevOPs.

• I am very pro-active in making communication and upskilling on emerging trends.
• Proficient in developing new approaches for better integration and minimal interactions, ease of access approaches.
• Profile development by reading about the latest trends in code, personal and professional development.
• Prefer office space work but also open to remote work 1-2 days.
• Efficient in time and project requirements, approaches and solving limitations.
• Voracious reader of language model implementations language-models

• Bioinformatics: Python, R, Ruby, Awk, Shell, Scala, Nushell
• Deep Learning: Python, R, Scala, learning Julia, learning graphsAPI.
• DevOPs: Shell, NuShell, Awk, Ruby, HashiCorp, Python
• Web Application: Streamlit, Shiny, Django, BootStrap, Julia, HTML, Javascript
• Static documentation: Markdown, ReadTheDocs, Jekyll and Ruby
• Templating engine: jinja and jinja2, jq, yq
• Bioinformatics templating: Nextflow, Snakemake.
• Mathematical Modelling: MATLAB.

• Currently using Ubuntu and Community
• Journal of Open Source Software

• Git management: Proficient in Github, Githubcli, Gitlab, GitKraken and Tower for all continous development.
• Job Scheduler: Skilled in both pbs and slurm. Established computing cluster and blades.
• Heroku Development: Application deployment using Heroku
• Docker: Docker applications

👉 streamlit-pacbiohifi: web application for pacbiohifi sequencing length streamlit-pacbiohifi
👉 streamlit-Univeristat-Potsdam: web application for Universitat Potsdam, slurm-applicator

• devopsutils: a devops system configuration gem: devops_system_profiler
• ruby_template_creator: a ruby templating gem creator: ruby template creator
• fasta_tokenizer: a fasta tokenizer generator and motif indexer: fasta_tokenizer
• panacheextract: a ruby gem for dealing with snps specific information for panache panacheextract
• fluxmodels: implementation of all flux models in ruby fluxmodels
• protalign: a pre-release protein alignment gem for the genome annotation protein-alignment-gem and proteinmultialign
• pacbiohifi-analyzer: analyzing pacbio hifi data from reads to graphs pacbiohifi-analyzer

• tairaccession: python package for interacting with tair: tairaccession
• graphanalyzer: python package for analyzing the alignments from the graph alignment tools: graphanalyzer
• rnaprocessor: python package for analyzing the sequence for tag based machine learning: rnaprocessor
• protein-annotator: python package for analyzing the genome-protein alignments protein-annotator
• ontologyanalyzer: python for analyzing the ontologies using the semantic web ontologyanalyzer

👉 panachegraph genome graph and nearest neighbour approach in julia-lang to the pangenome graphs. panachegraph

👉 evoseq genome annotation visualization, phylogeny and blocks estimation from protein to genome alignments evoseq, subfunction genomevisual