yuchaojiang / CODEX2Links
Full-spectrum copy number variation detection by high-throughput DNA sequencing
☆37Updated 3 years ago
Alternatives and similar repositories for CODEX2
Users that are interested in CODEX2 are comparing it to the libraries listed below
Sorting:
- ☆33Updated 3 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- QDNAseq package for Bioconductor☆50Updated 11 months ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 3 years ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Updated 4 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 9 years ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆22Updated 5 years ago
- Tool for parsing outputs from fusion detection tools. Part of a nf-core/rnafusion pipeline. Checkout a live demo at https://matq007.githu…☆27Updated last month
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 7 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Adapters for trimming☆30Updated 6 years ago
- R package for inferring copy number from read depth☆32Updated 2 years ago
- Genomic data interpretation and visualization Workshop☆21Updated last month
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆35Updated 2 years ago
- Filters for false-positive mutation calls in NGS☆30Updated 6 years ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆45Updated 2 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- ⛏ HLA predictions from NGS shotgun data☆53Updated last month
- Tumor Mutational Burden☆61Updated 10 months 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
- ☆24Updated 11 months ago
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆34Updated 3 years ago
- Gene Fusion Visualiser☆51Updated 2 years ago
- Automated human exome/genome variants detection from FASTQ files☆22Updated 3 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆31Updated last year
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 3 years ago
- Python program designed to reconstruct immunoglobulin gene rearrangements and oncogenic translocations from WGS, WES and capture NGS in l…☆20Updated 2 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆42Updated 4 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 3 years ago