karel-brinda / PhylignLinks
Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
β39Updated last year
Alternatives and similar repositories for Phylign
Users that are interested in Phylign are comparing it to the libraries listed below
Sorting:
- Phylogenetic compression of extremely large genome collections [661k βππ²ππΆπ | BIGSIdata βπ°π΄ππΆπ | AllTheBact'23 βπ³π±ππΆπ]β43Updated 8 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.β59Updated 8 months ago
- Automated strain separation of low-complexity metagenomesβ53Updated 4 years ago
- Code to create a PRG from a Multiple Sequence Alignment fileβ25Updated 3 months ago
- Fast and space-efficient taxonomic classification of long readsβ43Updated 3 months ago
- Colinear block visualisation toolβ31Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHashβ43Updated 2 years ago
- Recombination-free treesβ62Updated 3 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.β59Updated 2 years ago
- PanTax: Strain-level metagenomic profiling using pangenome graphsβ45Updated 3 months ago
- Genome size estimation from long read overlapsβ76Updated 2 weeks ago
- Remove human reads from a sequencing runβ46Updated this week
- Mandrake πΏ/π¨βπ¬π¦ β Fast visualisation of the population structure of pathogens using Stochastic Cluster Embeddingβ39Updated 9 months ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.β28Updated 3 months ago
- Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)β47Updated 5 months ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.β15Updated 3 years ago
- software to identify primers that can distinguish genomesβ20Updated 3 weeks ago
- β30Updated 2 years ago
- Differential k-mer analysisβ39Updated last year
- Plasmid analysis using rearrangement distancesβ49Updated 3 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenomeβ33Updated this week
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.β30Updated 2 months ago
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.β20Updated last year
- β18Updated last year
- Rapid estimation of phylogenetic trees using sketchingβ13Updated 10 months ago
- β45Updated 3 weeks ago
- β44Updated 4 years ago
- Approximate nearest neighbour search for microbial genomes based on hash metricβ57Updated this week
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.β31Updated 4 months ago
- frame-shift correction for long-read (meta)genomicsβ33Updated 2 years ago