mlin / gfabase
GFA insert into GenomicSQLite
☆49Updated 3 years ago
Alternatives and similar repositories for gfabase:
Users that are interested in gfabase are comparing it to the libraries listed below
- A module for improving the insertion sequences of structural variant calls☆30Updated 3 years ago
- extract MSAs from genome variation graphs☆33Updated 4 years ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆28Updated 5 months ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated last month
- convert variation graph alignments to coverage maps over nodes☆23Updated 3 months ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 10 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Updated 7 months ago
- Identification of segmental duplications in the genome☆27Updated 3 years ago
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- General purpose utility related to GAF files☆24Updated 3 weeks ago
- Convert HAL to VG☆22Updated 8 months ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆33Updated 4 years ago
- Programs implementing the trio-binning genome assembly method☆19Updated last year
- Tumour-only somatic mutation calling using long reads☆26Updated 6 months ago
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆37Updated 6 months ago
- the pangenome graph evaluator☆26Updated 4 years ago
- ☆17Updated last year
- ☆34Updated 5 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- somatic SV calling on matched tumor-normal co-assembly graphs☆20Updated 9 months ago
- SV calling for diploid assemblies☆27Updated last year
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆46Updated 4 years ago
- Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…☆44Updated last year
- Symmetric DUST for finding low-complexity regions in DNA sequences☆41Updated last year
- ☆28Updated 3 weeks ago
- recompute GFA link overlaps☆25Updated 2 years ago
- ☆36Updated last year
- Correcting errors in noisy long reads using variation graphs☆51Updated 2 years ago
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆14Updated 2 years ago
- Improved Phased Assembler☆28Updated 3 years ago