Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

Rapid determination of appropriate reference genomes.

Snakemake-based workflow for detecting structural variants in genomic data

A tool to genotype CYP2D6 with WGS data

(current) 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.

vSNP -- validate SNPs

Targeted Detection and Reconstruction of Plasmids

Exome/Capture/RNASeq Pipeline Implementation using snakemake

A pipeline for Bacterial Whole genome sequence data analysis

A Snakemake pipeline for Quality Control of Whole Genome Sequencing data

vSNP -- validate SNPs

DNA and RNA variant calling pipelines with HLA typing and Neoantigen predictions

Generate Lorenz plots and Coverage plots directly from BAM files

Multigranular Analysis of Regulatory Variants on the Epigenomic Landscape

Snakemake-based workflow for generating artificial genomes with structural variants

Genomic data manipulation tool

As a tool for cancer subtype prediction, Keraon uses features derived from cell-free DNA (cfDNA) in conjunction with PDX reference models to perform both classification and heterogenous phenotype fraction estimation.

Long read structural variants in rare disease cohort

A flexible metagenomic pipeline combining read-based, assemblies and MAGs with downstream analysis