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nkirtipal/README.md

Nikhil Kirtipal

Computational biologist working on multiomics integration, scRNA-seq, microbiome analysis, and bioinformatics workflows.

Skills 💻

  • Programming: R, Python, Bash
  • HPC & Workflows: SLURM, Snakemake
  • Bioinformatics Tools: Seurat, Scanpy, Bioconductor, DADA2, phyloseq, WGCNA, CellChat, Monocle, SCENIC, Cytoscape, bioBakery (MetaPhlAn, HUMAnN).
  • Omics Methods: Bulk RNA-seq, scRNA-seq, Microbiome, Multiomics
  • Databases: TCGA, GTEx, Xena, Metabolomics Workbench
  • Cancer Genomics: Mutation Analysis (MAF), Survival Analysis
  • Other: Machine Learning

Background 🧬

Wet-lab 🧪 biologist turned computational researcher — driven by biological questions, building tools and pipelines whenever the biology demands it.

🌱 Self-learner by necessity — when biology asks, I figure it out.

Connect 💻

🧬 Always learning — from 🧪 pipettes to 🐍 pipelines!

Pinned Loading

  1. NikOmicsDogma NikOmicsDogma Public

    Interactive framework for exploring multiomics relationships and central dogma concepts through systems biology visualization and biological knowledge integration.

  2. NikSeqRecur NikSeqRecur Public

    Recurrence-aware DNA sequence analysis tool for repeat detection, mutation annotation, and genomic visualization.

    Python

  3. MultiModal_RNAseq_Workflow MultiModal_RNAseq_Workflow Public

    A reproducible workflow integrating bulk RNA-seq and single-cell RNA-seq analysis using Seurat.

    R

  4. Bioimage_ML_Classification Bioimage_ML_Classification Public

    CNN-based bioimage classification for biological phenotype detection using machine learning and Explainable AI

  5. BenchToModel BenchToModel Public

    From the laboratoryBench to Computational Models => Exploring Machine Learning, Deep Learning, and their applications in biology.