algbio / GraphChainer
An accurate aligner of long reads to a variation graph, based on co-linear chaining
☆30Updated last year
Related projects ⓘ
Alternatives and complementary repositories for GraphChainer
- MEMO: MEM-based pangenome indexing for k-mer queries☆16Updated 5 months ago
- recompute GFA link overlaps☆25Updated 2 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆35Updated 11 months ago
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆31Updated last month
- Long-read aligner to pangenome graphs☆25Updated 6 months ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆23Updated 5 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆16Updated last month
- ☆32Updated last year
- Extracts subgraphs or components from a graph in GFA format☆23Updated this week
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 6 months ago
- Extracting paths from assembly graphs☆22Updated 6 months ago
- ☆11Updated last week
- Convert HAL to VG☆21Updated 3 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆25Updated 2 months ago
- convert variation graph alignments to coverage maps over nodes☆21Updated last week
- Prefix-renaming FASTA records really fast.☆15Updated 4 months ago
- Very simple and configurable all-in-one dotplot program☆12Updated last year
- A comparative genome scaffolding tool☆17Updated 6 years ago
- Kmer Analysis of Pileups for Genotyping☆19Updated last week
- Differential k-mer analysis☆33Updated 9 months ago
- A long-read analysis toolbox for cancer and population genomics☆20Updated 8 months ago
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- A module for improving the insertion sequences of structural variant calls☆29Updated 3 years ago
- ☆13Updated last year
- ☆21Updated last month
- ☆12Updated 5 months ago
- Pipeline to evaluate pangenomes, e.g. from the variation it contains or how well reads map☆10Updated 2 years ago
- A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…☆15Updated 9 months ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆27Updated last week