getzlab / deTiNLinks
DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated matched control.
☆52Updated 3 years ago
Alternatives and similar repositories for deTiN
Users that are interested in deTiN are comparing it to the libraries listed below
Sorting:
- ☆46Updated 5 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- identifying mutational significance in cancer genomes☆61Updated 2 years ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆54Updated 8 years ago
- QDNAseq package for Bioconductor☆52Updated last year
- Concordance and contamination estimator for tumor–normal pairs☆58Updated 11 months ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 5 years ago
- Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity☆40Updated 8 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆72Updated 4 years ago
- ☆25Updated last year
- Create "haplotype maps" of variants in order to use with Picardtools Crosscheck_Files utility, which allows for robust genotyping of func…☆28Updated last year
- ☆21Updated 3 weeks ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆49Updated 6 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Updated 4 years ago
- Battenberg R package for subclonal copynumber estimation☆91Updated 3 months ago
- ☆36Updated 6 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods☆46Updated 3 years ago
- ☆38Updated 4 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 4 years ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆74Updated last year
- Tumor Mutational Burden☆61Updated 2 months ago
- Burden testing against public controls☆50Updated last year
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆40Updated 4 years ago
- ☆53Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- Tools for processing and analyzing structural variants.☆33Updated 10 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆71Updated last year
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆34Updated 3 weeks ago