algbio / GraphChainer
An accurate aligner of long reads to a variation graph, based on co-linear chaining
☆32Updated 2 years ago
Alternatives and similar repositories for GraphChainer:
Users that are interested in GraphChainer are comparing it to the libraries listed below
- recompute GFA link overlaps☆25Updated 2 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- convert variation graph alignments to coverage maps over nodes☆23Updated 2 months ago
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆32Updated 3 weeks ago
- General purpose utility related to GAF files☆24Updated last week
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated last month
- ☆13Updated 2 weeks ago
- ☆32Updated 2 years ago
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- Extracts subgraphs or components from a graph in GFA format☆23Updated 5 months ago
- Long-read aligner to pangenome graphs☆26Updated 11 months ago
- Standalone tool and library allowing to work with barcoded linked-reads☆12Updated 4 months ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 10 months ago
- ☆16Updated 2 months ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆18Updated 10 months ago
- Convert HAL to VG☆22Updated 8 months ago
- Prefix-renaming FASTA records really fast.☆17Updated 10 months ago
- Programs implementing the trio-binning genome assembly method☆19Updated last year
- ☆21Updated last week
- Genotyping of copy number sensitive allele-specific haplotypes☆16Updated 2 months ago
- ☆17Updated 2 months ago
- ☆17Updated this week
- Genome Assembly 102☆14Updated this week
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 11 months ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆28Updated 4 months ago
- Unzip assembly graphs with Hi-C data and/or long reads.☆28Updated 7 months ago
- ☆17Updated last year
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Updated 7 months ago
- Web based viewer for small to medium GFA format files, similar to Bandage☆11Updated 2 months ago
- ☆28Updated 6 months ago