luntergroup / polyploid
Benchmarking variant calling in polyploids
☆13Updated 3 years ago
Alternatives and similar repositories for polyploid:
Users that are interested in polyploid are comparing it to the libraries listed below
- Benchmark structural variant calls against a reference set☆17Updated 3 months ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- Hidden Markov Model based Copy number caller☆20Updated 3 months ago
- ☆16Updated 3 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 9 months ago
- A wrapper for calling small variants from human germline high-coverage single-sample Illumina data☆13Updated 5 years ago
- Very simple and configurable all-in-one dotplot program☆12Updated last year
- Phasing reads with secondary alignments☆17Updated 2 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆14Updated 4 months ago
- ☆12Updated 3 years ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆23Updated 10 months ago
- ☆9Updated 4 years ago
- A tool set to assess the quality of the per read phasing and reduce the errors.☆12Updated 4 years ago
- ☆16Updated 2 weeks ago
- Identification of segmental duplications in the genome☆26Updated 2 years ago
- A long-read analysis toolbox for cancer and population genomics☆21Updated 10 months ago
- A simple tool to fix PacBio fasta/q that was not properly split into subreads☆14Updated 3 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
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 7 months ago
- Align subreads to ccs reads☆13Updated last year
- ☆9Updated 2 years ago
- Split a BAM file by haplotype support☆16Updated 7 years ago
- Convert HAL to VG☆21Updated 5 months ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 3 years ago
- Kmer Analysis of Pileups for Genotyping☆21Updated last week
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Updated 3 years ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…☆15Updated last year
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆26Updated 4 months ago