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MSc_Dissertation_Kvass
MSc_Dissertation_Kvass PublicIntegrated 16S + shotgun metagenomics workflow for kvass fermentation (QIIME2, MetaPhlAn4, Kraken2, HUMAnN3, DRAM2) with reproducible outputs.
Shell
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RNAseq_Isl1_Knockout
RNAseq_Isl1_Knockout PublicRNA-seq analysis of Isl1 knockout vs wild-type mouse allantois (GSE247182) using DESeq2 and fgsea for pathway enrichment.
R
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BPSM_Scripting_Tools
BPSM_Scripting_Tools PublicPractice scripts and cheat sheets for BPSM coursework — Linux, Bash, AWK, Python, Git, and HPC (Eddie) exercises for MSc Bioinformatics at the University of Edinburgh.
Shell
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BioDB_SQL_API_Project
BioDB_SQL_API_Project PublicR + SQL + API integration of Ensembl, UniProt, KEGG and miRBase for bioinformatics data modeling and retrieval.
R
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elaniti-nextflow-metagenomics
elaniti-nextflow-metagenomics PublicModular Nextflow DSL2 metagenomics pipeline with Docker and Slurm support for reproducible microbial genome analysis.
Nextflow
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