hall-lab / sv-pipeline
Pipeline for structural variation detection in cohorts
☆48Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for sv-pipeline
- heuristics to merge structural variant calls in VCF format.☆35Updated 8 years ago
- Python package and routines for merging VCF files☆29Updated 3 years ago
- Code for phasing SVs with SNPs☆52Updated 4 years ago
- Structural variant merging tool☆45Updated 2 months ago
- Pipeline for structural variant image curation and analysis.☆48Updated 2 years ago
- ☆39Updated 2 months ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆56Updated 2 years ago
- TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing dat…☆21Updated 7 years ago
- ☆51Updated 5 years ago
- Genotype and phase short tandem repeats using Illumina whole-genome sequencing data☆27Updated 3 years ago
- Tools for processing and analyzing structural variants.☆32Updated 9 years ago
- Runs a combination of tools to generate structural variant calls on whole-genome sequencing data☆46Updated 4 years ago
- ☆35Updated 3 years ago
- What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.☆29Updated last year
- ☆21Updated 2 weeks ago
- Structural variant caller☆54Updated 2 years ago
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆48Updated 3 years ago
- This repo is be archived, these workflows are still housed housed in the GATK repository under the scripts directory. The workflows are a…☆21Updated 4 years ago
- R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework☆39Updated 2 months ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- Structural Variant Prediction Viewer☆31Updated 7 years ago
- Remove primer sequence from BAM alignments by soft-clipping☆31Updated 4 years ago
- Burden testing against public controls☆50Updated 8 months ago
- Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.☆24Updated 9 years ago
- ☆45Updated 5 years ago
- Identify and annotate TE-mediated insertions in long-read sequence data☆40Updated last year
- ☆22Updated 3 years ago
- Methods to integrate data from multiple genome sequencing datasets and form consensus variant calls☆43Updated 2 years ago
- Structural Variant Index☆70Updated this week
- Genomic Association Tester☆29Updated last year