genomes

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Hail helper functions for the gnomAD project and Translational Genomics Group

H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)

A simple command-line tool to download data from Joint Genome Institute databases

Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]

Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)

Repository for the TRANSIT and TPP tools developed by the Ioerger Lab

A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequence Bloom Trees

This repository is for the paper "A generative nonparametric Bayesian model for whole genomes"

Supplementary repository for "Efficient and robust search of microbial genomes via Phylogenetic Compression"

A pipeline based on unmapped reads, which combines different tools for extends contigs and closing gaps present in the genomes

model and training of my HIgh Risk Project: Genetic Feature Detection on Breast Cancer Subtypes

The published study can be accessed on https://www.mdpi.com/1999-4915/12/12/1414

Python implementation of a program designed to create the reverse complement of a genome

Repository accompanying review in avian genomes by Bravo et al.

read data generator

🪛 Fetch ncbi metadata for sra and assemblies

Final Project WS2019: Alexander Amberger, Matthias Gruber, Simone Zimmerl

Aspiring bioinformatician and Biotechnology student at York University. Building skills in Python and computational biology. Interested in CRISPR, genomics, and data-driven science.