Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.

R package to work with ctDNA sequencing data

A simplified pipeline for ctDNA sequencing data analysis

cfDNAPro specializes in standardized and robust cfDNA fragmentomic analysis

Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA

Identification of gene-fusions, including EML4-ALK

Simple scripts to parallelize miRNA analysis with sRNAtoolbox performed for my Master thesis.

Code for SCLC cfMeDIP-seq PRIME as described in the following paper: doi: 10.1016/j.isci.2022.105487

Extract read counts from cfDNA

Plasma cell-free DNA hydroxymethylomes discriminate disease state in EGFR-mutant non-small cell lung cancer.

This repository contains the code used in the following publication: doi.org/10.1016/j.isci.2022.105487