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1. BactPrep BactPrep Public

   Flexible workflow designed for bacterial WGS analyses (annotation, core/pan-genome reconstruction, phylogeny)

   Python 8 1

2. BactAsm BactAsm Public

   Workflow designed for Download, QC, Assemble, Variant calling, and Annotate bacterial WGS in batch

   Python 1

3. salvadorlab/MetagenomicsToolsEvaluation salvadorlab/MetagenomicsToolsEvaluation Public

   This repository contains scripts to run 9 different shotgun metagenomics profiling software on a rat tissue dataset as well as scripts for their downstream analysis (import into R, alpha/beta diver…

   Shell 3

4. Environmental_Lepto_detection Environmental_Lepto_detection Public

   Comparing 3 different metagenomics approaches with ONT's long read sequencing method

   Shell

5. Norovirus_RNA_Seq Norovirus_RNA_Seq Public

   This repo contains code to pre-process, quant, and analyze RNA-Seq data obtained from human enteriod cell cultures

   Shell

6. Norovirus_single_cell_RNA_seq Norovirus_single_cell_RNA_seq Public

   This repo contains scripts to analyze Single-Cell RNA-Seq data obtained from human enteriod cell culture.

   R