There are 0 repository under cfdna topic.
cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
R package to work with ctDNA sequencing data
This is the official development repository for BaseVar, which call variants for large-scale ultra low-pass (<1.0x) WGS data, especially for NIPT data
High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants
Important papers relating to the biology of cell free DNA
FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.
R package and vignette to denoise metagenomic cell-free DNA sequencing data.
cfDNA methylation probe design from mybaits targeted sequencing
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.
Pipeline to call SNV's with 4 tools (VarDict, LoFreq, Mutect2 & SiNVICT)
Cancer estimation based on nucleosomes: Analysis of proportion of circulating tumor DNA fragments compared to nucleosome references.
Alterations in PTEN and ESR1 promote clinical resistance to alpelisib plus aromatase inhibitors
This repository contains the code used in the following publication: doi.org/10.1016/j.isci.2022.105487
Code for SCLC cfMeDIP-seq PRIME as described in the following paper: doi: 10.1016/j.isci.2022.105487
Plasma cell-free DNA hydroxymethylomes discriminate disease state in EGFR-mutant non-small cell lung cancer.
Workflow for making MSK-ACCESS standard binary alignment mapping file.