sourmash-bio / sourmash_plugin_branchwaterLinks
fast, multithreaded sourmash operations: search, compare, and gather.
☆23Updated last week
Alternatives and similar repositories for sourmash_plugin_branchwater
Users that are interested in sourmash_plugin_branchwater are comparing it to the libraries listed below
Sorting:
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 5 months ago
- Python wrapper for wavefront alignment using WFA2-lib☆35Updated 10 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆43Updated 2 years ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆28Updated last week
- Genome size estimation from long read overlaps☆61Updated 2 weeks ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆32Updated last month
- A novel method for sequence similarity estimation☆28Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆12Updated last year
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆43Updated last month
- Remove human reads from a sequencing run☆40Updated 2 months ago
- ☆45Updated 2 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆26Updated last month
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 3 weeks ago
- Sketch-based surveillance platform☆13Updated 9 months ago
- Drug Resistance Prediction with Reference Graphs☆21Updated 2 years ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆37Updated last year
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆35Updated 3 months ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Updated 5 months ago
- software to identify primers that can distinguish genomes☆20Updated 8 months ago
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- MetagenOmic read Re-Assigner and abundance quantifier☆18Updated 8 months ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated 4 months ago
- Wavefront alignment algorithm (WFA) in Golang☆32Updated 2 months ago
- Correcting errors in noisy long reads using variation graphs☆51Updated 2 years ago
- Colinear block visualisation tool☆31Updated last year
- A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineere…☆18Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆30Updated 2 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆99Updated 2 weeks ago