luntergroup / polyploidLinks
Benchmarking variant calling in polyploids
☆15Updated 3 years ago
Alternatives and similar repositories for polyploid
Users that are interested in polyploid are comparing it to the libraries listed below
Sorting:
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- Split a BAM file by haplotype support☆16Updated 7 years ago
- Benchmark structural variant calls against a reference set☆17Updated 10 months ago
- ☆16Updated 3 years ago
- Hidden Markov Model based Copy number caller☆20Updated 10 months ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated last year
- A tool set to assess the quality of the per read phasing and reduce the errors.☆12Updated 5 years ago
- A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…☆16Updated last year
- Functions to compare a SV call sets against a truth set.☆30Updated 2 months ago
- Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.☆11Updated 2 months ago
- Very simple and configurable all-in-one dotplot program☆13Updated 2 years ago
- ☆16Updated 7 months ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆24Updated last year
- ☆12Updated 3 years ago
- ☆10Updated 5 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆14Updated 2 weeks ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆27Updated 11 months ago
- Detect and phase minor SNVs from long-read sequencing data☆13Updated 3 years ago
- A long-read analysis toolbox for cancer and population genomics☆23Updated last month
- ☆10Updated 5 years ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 3 years ago
- Linear-time, low-memory construction of variation graphs☆20Updated 5 years ago
- Ultra-efficient mapping-free structural variation genotyper☆19Updated 4 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆12Updated last year
- Tandem repeat genotyping with long reads☆29Updated 3 months ago
- A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.☆18Updated last month
- base-level dotplots from PAF alignments☆26Updated last month
- PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium☆12Updated 4 months ago
- De-novo Assembly Structural Variant Caller☆13Updated 8 years ago
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Updated 3 years ago