Nancy F. Hansen's repositories
SVanalyzer
Tools for the analysis of structural variation in genomes
MMBVariantCalling
Scripts and updates for running the variant pipeline described in "Variant Calling From Next Generation Sequence Data" by Nancy F. Hansen
mlgenotype
Python package for training and using machine learning models to recognize structural variants using features of aligned short read data
bioconda-recipes
Conda recipes for the bioconda channel.
issue-dump
Place to send issues created in error
issue-playground
Testing repository for issue templates and trigger to google sheet
LateStageEECs
Statistical analysis software used in Rudd et al., "KLF3 and PAX6 are candidate driver genes in late-stage, MSI-hypermutated endometrioid 2 endometrial carcinomas"
github_issues
Python software to create and retrieve GitHub issues and write spreadsheets to Google Sheets with issue metadata
nhansen.github.io
Documentation for Nancy Hansen's software tools
RFGenotypeManuscript2023
Scripts and data files for "Random forest classifiers trained on simulated data enable accurate short read-based genotyping of structural variants in the alpha thalassemia genomic region"
T2Tvariants
Code used for Aganezov et al., A complete reference genome improves analysis of human genetic variation. bioRxiv, 2021.