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1. Wastewater_surveillance_pipeline Wastewater_surveillance_pipeline Public

   This repository contains a suite of tools for analyzing within-sample genetic diversity of SARS-CoV-2 in Wastewater (WW) samples

   R 1 2

2. SodaPop SodaPop Public

   Forked from louisgt/SodaPop

   Forward-time simulator for large-scale population dynamics and molecular evolution including pangenome evolution

   R

3. Fiji_Mobile_Gene_Specific_PopGen_scripts Fiji_Mobile_Gene_Specific_PopGen_scripts Public

   This pipeline allows to call mobile genes SNVs and compute popGen metrics of interest from mobile gene alignment with samples metagenomic reads.

   R

4. SARS_CoV_2_haplotypes_Tajima_D_2020_time_series SARS_CoV_2_haplotypes_Tajima_D_2020_time_series Public

   Scripts and data used for analyzing the spread of SARS-CoV-2 haplotypes worldwide during the first and second waves (2020)

   R

5. SARS-CoV-2-HPDA-evolutionary-analysis SARS-CoV-2-HPDA-evolutionary-analysis Public

   This repository contains a script for analyzing SARS-CoV-2 evolution in epitopes during the first two waves of the COVID-19 pandemic. The immunological data come from a high protein density array a…

   R

6. sc-eQTL sc-eQTL Public

   This repository contains the script to parse single-cell RNA-sequencing data and perform downstream analyses like variance partitioning and eQTL mapping

   Python