Stars
General tools for genomic analyses.
Polarization of ancestral and derived polymorphic alleles for inferences of extended haplotype homozygosity in human populations
A deletion and duplication caller from NGS paired-end data.
Software for FLT3-ITD detection and MRD monitoring assay
Companion site for the textbook Quantum Computing: An Applied Approach
Viral RSV analysis pipeline using Illumina or Oxford Nanopore Technologies amplicon-based sequencing data
This repo contains CUDA-Q Academic materials, including self-paced Jupyter notebook modules for building and optimizing hybrid quantum-classical algorithms using CUDA-Q.
Calibrated clustering with artificial variables to avoid over-clustering in single-cell RNA-sequencing
Pipeline for ROH analysis for ancient genomes (Cebellos, Gürün et al. 2021, Current Biology)
R package to summarize, represent and process PLINK's ROH outcomes.
Pretraining infrastructure for multi-hybrid AI model architectures
Genome modeling and design across all domains of life
Toolkit for Population Genetic Statistics from Pool-Sequenced Samples, e.g., in Evolve and Resequence experiments
Leroy & Rougemont - “learning-by-doing” introduction to population genomics - scripts
A genealogy-based method to estimate the GRM within one ancestry in admixed populations
Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
A critical evaluation of D statistics and the theory of Neanderthal introgression
LaTeX and associated files for lecture notes used in EEB 5348 at the University of Connecticut
Workflow for processing Illumina sequencing runs for ancient human DNA
The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequence data.