Linked Data Platform for Animal Breeding & Genomics
Data, script, and output used for the guppy QTL project by Nathan Phipps and Dr. Laura Stein, starting from 5/1/2020.
QTL mapping workflow for BC1 population of Jaltomata.
Code used for the manuscript 'Network reconstruction for trans acting genetic loci using multi-omics data and prior information' by Hawe et al., 2022 in Genome Medicine
RNA-seq code with Bowtie alignment and generating strain-specific counts using Emase
Research Bot is an assistant for genetics/QTL analysis that combines fast SQL analytics in DuckDB with an optional ChromaDB vector store for semantic search. It can optionally integrate GWAS and Ensembl data (and local GTEx/Tabula Muris files) to enrich cross-species gene and trait exploration.
Statistical genetics workflow for QTL colocalization with GWAS summary statistics.
A workflow based on QTLtools and tensorQTL to run cis- and trans-QTL analyses (SLURM based).
Data, script, and outputs for the guppy courtship behavior chapter of Nathan Phipps' M.S. thesis project (An extension of Laura Stein's guppy intercross project.) Study conducted at Colorado State University with funding from the National Science Foundation.
In-silico methods for finemapping of genetic regions in inbred mice
This is the public repository for information related to the thesis chapter of the same name as the title.
Provides additional fields and data import which provide support for quantitative trait loci. Additionally, it integrates with Tripal Map through shared vocabulary terms and data storage models.
Quantum Transfer Learning (QTL) for Lottery Prediction
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