kcleal / svbench
Benchmark structural variant calls against a reference set
☆17Updated 3 months ago
Alternatives and similar repositories for svbench:
Users that are interested in svbench are comparing it to the libraries listed below
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 9 months ago
- Hidden Markov Model based Copy number caller☆20Updated 3 months ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- Identification of segmental duplications in the genome☆26Updated 2 years ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆26Updated 4 months ago
- De-novo Assembly Structural Variant Caller☆13Updated 8 years ago
- Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.☆10Updated 2 months ago
- A module for improving the insertion sequences of structural variant calls☆30Updated 3 years ago
- Benchmarking variant calling in polyploids☆13Updated 3 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Updated 2 years ago
- ☆16Updated last month
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 4 years ago
- Functions to compare a SV call sets against a truth set.☆28Updated 9 months ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- ☆32Updated 2 years ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 7 months ago
- A long-read analysis toolbox for cancer and population genomics☆21Updated this week
- Method to optimally select samples for validation and resequencing☆27Updated 3 years ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆29Updated 2 months ago
- Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data☆15Updated 10 months ago
- Split a BAM file by haplotype support☆16Updated 7 years ago
- Archived version 1.0.2☆16Updated 5 years ago
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- ☆12Updated 3 years ago
- Phasing reads with secondary alignments☆17Updated 2 months ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 3 years ago
- A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)☆13Updated 6 years ago
- ☆16Updated 3 years ago
- Scripts to split reference and run mummer in parallel on an SGE cluster☆11Updated 8 years ago