A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses
☆21Feb 12, 2026Updated 8 months ago
Alternatives and similar repositories for panqc
Users that are interested in panqc are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Jun 17, 2022Updated 4 years ago
- R package for microbial pangenomics☆25Apr 12, 2022Updated 4 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 3 months ago
- Analysing the genomic context of mobile genes☆11Jul 21, 2025Updated last year
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- post processing of bacterial pangenome gene presence/absence matrices☆68Jan 19, 2026Updated 9 months ago
- A tool to detect acquired AMR genes directly from long read sequencing data.☆32Jan 31, 2026Updated 9 months ago
- Draw pan- and core-genome curves from proteinortho output☆14Oct 26, 2023Updated 3 years ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated 2 years ago
- kMetaShot is an alignment-free taxonomic classifier based on k-mer/minimizer counting for MAGs☆12Oct 5, 2026Updated 3 weeks ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆22Sep 9, 2026Updated last month
- ☆10Jun 9, 2025Updated last year
- Fast pairwise transmission inference from single genome and/or metagenomic data☆40Aug 21, 2026Updated 2 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆31Sep 21, 2024Updated 2 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- General purpose tools for every-day sequencing bioinformatics. If you use any of these tools, please acknowledge this repository (there a…☆12Oct 13, 2020Updated 6 years ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆25Sep 27, 2026Updated last month
- Inferring global and local strict molecular clocks using root-to-tip regression☆20Jun 30, 2026Updated 4 months ago
- Plasmid analysis using rearrangement distances☆56Jul 19, 2026Updated 3 months ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆54Aug 21, 2026Updated 2 months ago
- Within-species genome-wide dN/dS estimation from very many genomes☆25Oct 26, 2020Updated 6 years ago
- Flexible workflow designed for bacterial WGS analyses (annotation, core/pan-genome reconstruction, phylogeny)☆12Aug 6, 2023Updated 3 years ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated 2 years ago
- Chromosome-level synteny plotting using orthologous regions☆33Sep 19, 2024Updated 2 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆28Feb 12, 2026Updated 8 months ago
- ☆32Nov 25, 2019Updated 6 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆38Jul 21, 2025Updated last year
- Split k-mer analysis – version 2☆109Oct 20, 2026Updated 2 weeks ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆10Dec 21, 2022Updated 3 years ago
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆54Jun 10, 2026Updated 4 months ago
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets☆25Apr 30, 2026Updated 6 months ago
- extract MSAs from genome variation graphs☆34Mar 24, 2026Updated 7 months ago
- A toolbox for pangenome analysis and threshold evaluation.☆103Jul 8, 2022Updated 4 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Uses cDBG to count unitigs in bacterial populations☆20Feb 15, 2023Updated 3 years ago
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated last year
- ⚡🦠🧬📇 Rapid microbial genomes-to-report pipeline☆75Oct 27, 2026Updated last week
- Iterative Gene clUster Analysis, a high-throughput method for gene cluster family identification.☆25Oct 19, 2026Updated 2 weeks ago
- CNN models for antibiotic resistance prediction in M. tuberculosis genomes. From Green & Yoon et al (forthcoming)☆28Jan 19, 2023Updated 3 years ago
- A Nextflow pipeline for fast and accurate SNP distance estimation from WGS read data or genome assemblies☆11Jun 11, 2026Updated 4 months ago
- Mumemto: multi-MUM and MEM finding across pangenomes☆140Sep 21, 2026Updated last month