Jverma / GATK-pipelineLinks
A shell script which implements GATK pipeline for variant calling.
☆15Updated 10 years ago
Alternatives and similar repositories for GATK-pipeline
Users that are interested in GATK-pipeline are comparing it to the libraries listed below
Sorting:
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 9 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- ☆78Updated 11 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆22Updated 2 years ago
- An awk-like VCF parser☆56Updated last year
- Reliable CNV detection in targeted sequencing applications☆9Updated 6 years ago
- Filtering and profiling of next-generational sequencing data using region-specific rules☆78Updated last year
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated 2 years ago
- Tools for bam file processing☆55Updated 10 years ago
- A method to identify structural variation from sequencing data in target regions☆32Updated 4 years ago
- Read visualizer for structural variants☆84Updated 6 years ago
- Algorithms to compute DNA complexity☆34Updated 3 years ago
- Assembly Based ReAligner☆74Updated 7 years ago
- Analysis tool for Nanopore sequencing data☆33Updated 6 years ago
- A tool to benchmark mappers and different parameters within minutes☆44Updated 6 years ago
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆56Updated 8 years ago
- ☆46Updated 5 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆53Updated 8 years ago
- A bioinformatics tool for SV detection and virus integration discovery☆20Updated 7 years ago
- Multi-sample somatic variant caller☆52Updated 3 years ago
- Collection of notes and scripts related to NGS☆14Updated 5 months 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…☆23Updated 5 years ago
- Methods to integrate data from multiple genome sequencing datasets and form consensus variant calls☆44Updated 3 years ago
- Python package and routines for merging VCF files☆29Updated 4 years ago
- Tools for next-generation sequencing analysis☆88Updated 6 years ago
- smCounter: a versatile UMI-aware variant caller to detect both somatic and germline SNVs and indels. Published in article "Detecting very…☆20Updated 6 years ago
- Galaxy RNA workbench☆40Updated 4 years ago
- ☆68Updated 3 years ago