umccr / vcf_stuff
📊Evaluating, filtering, comparing, and visualising VCF
☆27Updated last year
Alternatives and similar repositories for vcf_stuff:
Users that are interested in vcf_stuff are comparing it to the libraries listed below
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 5 years ago
- a parallel R package for detecting copy-number alterations from short sequencing reads☆23Updated 3 years ago
- DriverPower☆26Updated last month
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 3 years ago
- VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…☆22Updated 5 years ago
- This is a pipeline for variant annotation in the diagnosis of rare genetic disorders. It relies on open source data and has instructions …☆17Updated last year
- An R package for predicting HR deficiency from mutation contexts☆28Updated 2 weeks ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 8 years ago
- ☆46Updated 5 years ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Updated 4 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.☆29Updated 4 years ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 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…☆43Updated 2 years ago
- ☆34Updated 5 years ago
- a set of NGS pipelines☆24Updated last week
- ☆25Updated 6 years ago
- Remove primer sequence from BAM alignments by soft-clipping☆31Updated 5 years ago
- A set of tools to annotate VCF files with expression and readcount data☆29Updated 6 months ago
- MSKCC Reis-Filho Lab pipeline thingy☆16Updated 7 months ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Codes and Data for FFPEsig manuscript☆15Updated last year
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆49Updated 2 years ago
- Genomes on the Cloud, Mapping & Variant Calling Pipelines☆33Updated 7 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated 4 months ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- ☆13Updated 7 years ago