David Lougheed

Software & Projects

• SNIPe

  SNIPe is a web tool for optimally choosing environmental DNA (eDNA) primer pairs to identify a set of taxa. Part of a publication by Tournayre et al. (2024).

  
• STRkit

  STRkit is a short tandem repeat (STR) genotyper for long read sequencing data such as PacBio HiFi. STRkit was created as part of my Master's degree in Human Genetics at McGill.

  
• EpiVar Browser

  A browser for exploring quantitative trait loci and their associations with genotype and ancestry. Published as a Bioinformatics application note: Lougheed et al. (2024), and as part of a publication by Aracena et al. (2024).

• Bento

  A platform for storing, analyzing, and visualizing genomic and epigenomic data, created while working at the Canadian Centre for Computational Genomics (C3G).

  
• David's Trail Guide System

  A set of three components for creating mobile trail guide applications: a content server with a corresponding front-end and a white-label Expo application. I used this to build the latest version of the Elbow Lake Trail Guide.

  
• MHCut Browser (2019)

  A browser for microhomologies at variant CRISPR/Cas9 cut sites. Part of a publication by Grajcarek et al. (2019).

• Elbow Lake Trail Guide

  An interactive trail guide app available on Android and iOS.

• Canadian Field Stations (2014-2016; 2024)

  A compendium of field stations across Canada which I assist in maintaining.