yuchaojiang / CODEX2
Full-spectrum copy number variation detection by high-throughput DNA sequencing
☆37Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for CODEX2
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 2 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆31Updated 8 years ago
- R package for inferring copy number from read depth☆31Updated 2 years ago
- Automated human exome/genome variants detection from FASTQ files☆22Updated 3 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆21Updated 2 years ago
- 📊Evaluating, filtering, comparing, and visualising VCF☆27Updated last year
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆28Updated 6 years ago
- Main repository for Drews et al. (Nature, 2022)☆38Updated last year
- DriverPower☆26Updated 5 months ago
- Genomic Association Tester☆29Updated last year
- Integrated copy number variation detection toolset☆25Updated 4 years ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆21Updated 4 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆39Updated 3 years ago
- a set of NGS pipelines☆24Updated 2 weeks ago
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆33Updated 2 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆49Updated 2 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- ☆32Updated 2 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to …☆20Updated 2 years ago
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆32Updated 2 years ago
- Utility functions for FACETS☆34Updated 8 months ago
- ☆13Updated 7 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆41Updated 2 years ago
- ☆22Updated 3 months ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆45Updated this week
- An R package for predicting HR deficiency from mutation contexts☆27Updated last year