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abu85/README.md

Hi, I’m Abu Bakar Siddique 👋

Bioinformatician at SLU Bioinformatics Infrastructure (SLUBI), Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden.

I build reproducible bioinformatics workflows and downstream analyses for metagenomics, transcriptomics, genomics, and I enjoy turning complex biological questions into robust, shareable pipelines and clear results.

🔧 Skills & Tooling

Systems & Dev: Linux | Bash | Git & GitHub

Languages: R (advanced) | Python (beginner)

Workflow Engines & Enviornment: Nextflow (medium) | Snakemake (learning) | Pixi | Conda | R Shiny |

Domains: Metagenomics (ITS, 18S, 16S, COI, DNA, RNA, long reads: PACBIO, Nanopore & short reads: shotgun) | Transcriptomics, metatranscriptomics|

Wet-lab: Extraction: DNA, RNA | PCR | HTS library preparation | Clonning |

Communication: Technical presentations & training

🤝 Open to Collaborate: Bioinformatics analysis pipeline, workflow, metagenomics, metatranscriptomics, transcriptomics, ecology, mycology, plant biology, pathology, and virology.

💬 Ask Me About Metabarcoding, metagenomics, and DGE, GO, KO analysis—from study design to reproducible pipelines.

📫 Contact Email: abu.siddique@slu.se

github linkedin facebook twitter website

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