kcleal / pywfa
Python wrapper for wavefront alignment using WFA2-lib
☆35Updated 5 months ago
Alternatives and similar repositories for pywfa:
Users that are interested in pywfa are comparing it to the libraries listed below
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated last month
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆37Updated 6 months ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆34Updated last month
- ☆41Updated last month
- ☆28Updated 6 months 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
- Correcting errors in noisy long reads using variation graphs☆51Updated 2 years ago
- Tumour-only somatic mutation calling using long reads☆26Updated 5 months ago
- Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)☆42Updated last week
- Differential k-mer analysis☆35Updated last year
- Wavefront alignment algorithm (WFA) in Golang☆29Updated 5 months ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 10 months ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- Fast and exact gap-affine partial order alignment☆49Updated last week
- Kmer Analysis of Pileups for Genotyping☆29Updated last week
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆36Updated 2 months ago
- ☆34Updated 5 years ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆28Updated 4 months ago
- VACmap: a long-read aligner specifically designed for complex structural variation discovery☆35Updated 4 months ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆31Updated 2 years ago
- somatic SV calling on matched tumor-normal co-assembly graphs☆20Updated 8 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated last year
- Web based viewer for small to medium GFA format files, similar to Bandage☆11Updated 2 months ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆22Updated this week
- Improved Phased Assembler☆28Updated 3 years ago
- Python bindings to spoa☆20Updated last year
- convert variation graph alignments to coverage maps over nodes☆23Updated 2 months ago
- GFA insert into GenomicSQLite☆49Updated 3 years ago
- Colinear block visualisation tool☆30Updated last year
- R package and wrapper functions for identifying serial structural variations from genome assemblies