Rapid unbiased fragmentomics analysis of cfDNA

FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.

Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA

A collection of web applications to visualize, edit and validate RDML files.

GrayNorm is an algorithm that helps the researcher to identify suitable reference genes that are minimally influenced by the experiment. Gene expression levels are determined by quantitative revers…

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.

Application for making ENCODE Blacklists

Pairwise genome comparison pipeline using the LAST software to align a list of query genomes to a target genome, and plot the results

Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from cancer and other eukaryotic cells.

A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.