Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

Software for the analysis and visualization of site-saturation mutagenesis experiments

Generate Lorenz plots and Coverage plots directly from BAM files

"Applied bioinformatics" is a course for Genetics Master Program at Genetics Department

ICGC ARGO DNA-Seq Processing Workflow

✂️ Trim sequencing adapters from NGS data automatically

Collection of Dockerfiles for bioinformatics tools

A pipeline for the detection of Cas genes and CRISPR arrays from unassembled raw illumina sequencing reads

Detect RNA contamination in human Illumina DNA-seq experiments

This is a repository for a pipeline used to identify imprinted genes or allele specific expressions using Illumina next generation sequencing (NGS) platform. This repository contains a work in progress to identify imprinted genes in polyploid species.

CLARK: Fast, accurate and versatile sequence classification system

This tool is designed to scan all positions on a gene than can be used to specifically cut one DNA strand using a given cas9.

R Shiny app encapsulating FilLT3r tool : https://doi.org/10.1186/s12859-022-04983-6

Program extracts a valuable information from an output vecscreen file

DNA-seq Data process (example from real case)

Homework submissions and copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing

Strand Displacement Cascades simulator

R Shiny app for germline genomic variants interpretation. The tool suite to deal with the underlying local structured database is provided here : https://github.com/clbenoit/GermlineVarDBTools

R Shiny app for somatic genomic variants interpretation. The tool suite to deal with the underlying local structured database is provided here : https://github.com/clbenoit/SomaVarDBTools