Evaluating Nanopore-based bacterial variant calling
☆21Jul 23, 2025Updated 7 months ago
Alternatives and similar repositories for NanoVarBench
Users that are interested in NanoVarBench are comparing it to the libraries listed below
Sorting:
- Interpretative standards for AMR genotypes☆27Updated this week
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆13Jun 12, 2024Updated last year
- ☆18Jun 11, 2024Updated last year
- Population analysis PIPEline 🛠🧬☆22Updated this week
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Jun 26, 2018Updated 7 years ago
- Parallel/Homoplasic SNP Finder☆21May 3, 2023Updated 2 years ago
- Simple-to-use interactive comparison of two bacterial genomes☆26Jan 30, 2026Updated last month
- Assign genotypes to Salmonella Paratyphi A isolates using their whole-genome data.☆10Mar 6, 2025Updated 11 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Mar 7, 2025Updated 11 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆24Aug 1, 2025Updated 7 months ago
- Recombination-free trees☆63Sep 1, 2025Updated 6 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Feb 20, 2026Updated last week
- ☆10Mar 29, 2025Updated 11 months ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆21Dec 9, 2025Updated 2 months ago
- Bifrost graph gene caller.☆98Jan 20, 2026Updated last month
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆42Feb 23, 2026Updated last week
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆44Aug 20, 2025Updated 6 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆65Jun 16, 2025Updated 8 months ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- Annotate your metagenome assemblies☆11Jul 19, 2018Updated 7 years ago
- Intra-species bacterial contamination detection☆25Feb 5, 2026Updated 3 weeks ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆148Jan 9, 2026Updated last month
- Rust bindings to minimap2 library☆109Feb 22, 2026Updated last week
- Plasmid analysis using rearrangement distances☆50Feb 19, 2026Updated 2 weeks ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆85Jan 24, 2026Updated last month
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 2 months ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆25Jul 13, 2023Updated 2 years ago
- Overview of our data for microbial genomic benchmarking☆35Feb 5, 2026Updated last month
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- Visualise and analyse nanopore (ONT) raw signals☆128Dec 12, 2025Updated 2 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆34Updated this week
- in silico typing of the H. influenzae cap locus☆12Jul 15, 2024Updated last year
- An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and…☆52Jul 24, 2025Updated 7 months ago
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Aug 15, 2024Updated last year
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆95Dec 9, 2025Updated 2 months ago
- A repository for collecting GPU basecalling stats☆77Feb 10, 2026Updated 3 weeks ago
- Follow up to Grace Blackwell's 661k dataset, for 2023☆135Updated this week
- Ultra-rapid detection of viral variants directly from sequencing data☆36Feb 17, 2026Updated 2 weeks ago
- Quality control for phylogenetic analyses☆13Feb 23, 2026Updated last week