mbhall88 / NanoVarBenchLinks
Evaluating Nanopore-based bacterial variant calling
☆20Updated 3 months ago
Alternatives and similar repositories for NanoVarBench
Users that are interested in NanoVarBench are comparing it to the libraries listed below
Sorting:
- Recombination-free trees☆60Updated 2 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 6 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆100Updated last month
- Genome size estimation from long read overlaps☆62Updated this week
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆43Updated 7 months ago
- a python package for automated generation of phylogenetic trees from genbank files☆23Updated 7 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 4 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆41Updated last week
- Bifrost graph gene caller.☆95Updated last month
- Genomewide Epistasis Analysis on Bacteria☆14Updated 5 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- Bacterial GWAS analysis☆45Updated this week
- A toolkit for prokaryotic comparative genomics☆51Updated 2 weeks ago
- Split k-mer analysis – version 2☆96Updated 2 weeks ago
- Microbial agile accurate SNP Typer☆29Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 3 months ago
- Gene-flank analysis tool☆33Updated 10 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Identify short variants and structural variants from raw sequencing data or genomic sequences☆33Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated last month
- Colinear block visualisation tool☆31Updated last year
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Python tool to reduce size and redundancy of phylogenetic datasets☆46Updated 2 years ago
- Plasmid analysis using rearrangement distances☆46Updated last month
- Graph-based assembly phasing☆87Updated 6 months ago
- A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference☆36Updated last week
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago