a framework for training sequence-level deep learning networks

PANDORA 💻

A modular annotation tool for genomic variants

The Visualization Multitool for Molecular Epidemiology and Bioinformatics

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

Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

RADseq Data Exploration, Manipulation and Visualization using R

Phigaro is a scalable command-line tool for predicting phages and prophages

stackr: an R package to run stacks software pipeline

Build DeepSea training dataset from raw data

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

Shiny app for making and annotating Volcano plots

A NGS analysis framework for WGS data, which automates the entire process of spinning up AWS EC2 spot instances and processing FASTQ to snvVCF in <60m, for dollars a sample and achieving Fscores of 0.998.

Genome Contact Map Explorer - gcMapExplorer. Visit:

The AnnSQL package enables SQL based queries on AnnData objects.

Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)

genomic alignment similarity search tool

Differential Privacy Protection against MembershipInference Attack on Machine Learning for Genomic Data

Collection of statistical scripts, image analysis workflows, data used in publications by the Misteli Lab.