karel-brinda / attotreeLinks
Rapid estimation of phylogenetic trees using sketching
☆13Updated 9 months ago
Alternatives and similar repositories for attotree
Users that are interested in attotree are comparing it to the libraries listed below
Sorting:
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 3 months ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆34Updated 2 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated 6 months ago
- Variant call verification☆16Updated 7 months ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Updated last week
- Fast and exact gap-affine partial order alignment☆57Updated 3 weeks ago
- Differential k-mer analysis☆38Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆43Updated 2 years ago
- Correcting errors in noisy long reads using variation graphs☆50Updated 3 years ago
- Python wrapper for wavefront alignment using WFA2-lib☆37Updated last year
- A long read simulator based on badread idea☆22Updated 3 years ago
- Colinear block visualisation tool☆31Updated last year
- convert variation graph alignments to coverage maps over nodes☆26Updated last week
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆33Updated last week
- Extracting paths from assembly graphs☆24Updated last year
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Updated 7 months ago
- ☆28Updated last year
- recompute GFA link overlaps☆25Updated 3 years ago
- Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…☆45Updated 2 years ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Updated last year
- Wavefront alignment algorithm (WFA) in Golang☆32Updated 4 months ago
- Genome size estimation from long read overlaps☆74Updated last week
- software to identify primers that can distinguish genomes☆20Updated 2 weeks ago
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆42Updated last year
- ☆15Updated 5 years ago
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆57Updated 2 weeks ago
- Long read aligner for cyclic and acyclic pangenome graphs☆40Updated last year
- Uses cDBG to count unitigs in bacterial populations☆16Updated 2 years ago