unipept / FragGeneScanRsLinks
Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.
☆30Updated 4 months ago
Alternatives and similar repositories for FragGeneScanRs
Users that are interested in FragGeneScanRs are comparing it to the libraries listed below
Sorting:
- Fast and space-efficient taxonomic classification of long reads☆43Updated 5 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 9 months ago
- Microbial agile accurate SNP Typer☆30Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- Recombination-free trees☆63Updated 5 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆45Updated 10 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆45Updated this week
- Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Updated 6 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Updated 10 months ago
- Bacterial GWAS analysis☆46Updated 2 weeks ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆15Updated 8 months ago
- Gene-flank analysis tool☆36Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆34Updated 6 months ago
- frame-shift correction for long-read (meta)genomics☆33Updated 2 years ago
- Remove human reads from a sequencing run☆47Updated last month
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆36Updated last year
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆26Updated last year
- Evaluating Nanopore-based bacterial variant calling☆21Updated 6 months ago
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆33Updated last year
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆28Updated 5 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Updated last week
- Scalable creating/updating of metagenome profiling databases☆63Updated 7 months ago
- strain-level analysis tools☆39Updated last year
- MAG Circularization Method☆32Updated 2 months ago
- MAGScoT - a MAG scoring and refinement tool☆42Updated last year
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆17Updated 2 weeks ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago