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1. anvio_pangenomic_analysis_of_Chlamydia_trachomatis anvio_pangenomic_analysis_of_Chlamydia_trachomatis Public

   A reproducible pangenomic analysis of seven Chlamydia trachomatis strains using anvi'o v9, exploring core and accessory gene clusters across different serovars and clinical isolates.

   Shell

2. neurodegenerative_cross_tissue_twas neurodegenerative_cross_tissue_twas Public

   End-to-end TWAS pipeline for Alzheimer's disease integrating Kunkle et al. (2019) GWAS summary statistics with GTEx v8 MASHR brain eQTL models to identify causal genes via cross-tissue omnibus regr…

   Python

3. hybrid_genome_assembly hybrid_genome_assembly Public

   Bacterial whole genome hybrid (Illumina + Nanopore) assembly and analysis.

   Shell

4. nf-core-viralrecon-influenza nf-core-viralrecon-influenza Public

   Reference-guided genomic variant mapping pipeline and intrahost variome atlas for the segmented Influenza A virus (H1N1pdm09), characterizing within-host quasispecies diversity and mutational burde…

   Python

5. rnaseq_analysis_of_Methanosarcina_mazei_strain_G-1 rnaseq_analysis_of_Methanosarcina_mazei_strain_G-1 Public

   RNA-Seq Analysis of Methanosarcina mazei strain G-1 using READemption.

   Shell

6. mucosal-pan-omics mucosal-pan-omics Public

   A computational metataxonomics pipeline for 16S rRNA-seq, quantifying mucosal dysbiosis, differential microbial abundance, and co-occurrence network topologies to identify keystone taxa in Crohn's …

   R