balabanmetin / applesLinks
distance based phylogenetic placement
☆27Updated last year
Alternatives and similar repositories for apples
Users that are interested in apples are comparing it to the libraries listed below
Sorting:
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
 - Efficient calculation of phylogenetic distance matrices.☆48Updated last year
 - ☆42Updated last year
 - Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 5 months ago
 - Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 6 months ago
 - A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 3 months ago
 - Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
 - PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
 - VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
 - A set of scripts for calculating pairwise SNP distance☆42Updated 2 years ago
 - ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆55Updated this week
 - 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
 - Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
 - Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated last month
 - Recombination-free trees☆60Updated 2 months ago
 - Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆43Updated 7 months ago
 - Nail is an Alignment Inference tooL☆53Updated 2 weeks ago
 - Fast and space-efficient taxonomic classification of long reads☆43Updated 2 months ago
 - Approximate nearest neighbour search for microbial genomes based on hash metric☆57Updated last month
 - Python package to plot a phylogenetic tree on an existing matplotlib axis.☆26Updated 3 months ago
 - Gene-flank analysis tool☆33Updated 10 months ago
 - SHOOT.bio - the phylogenetic search engine☆27Updated 2 years ago
 - Reference-guided multiple sequence alignment of viral genomes☆70Updated 4 months ago
 - tree visualization for tree + annotation data☆42Updated 4 months ago
 - Get microbial sequence data easier and faster☆28Updated 5 years ago
 - ☆18Updated last year
 - Convert genbank files to a swath of other formats☆22Updated 2 years ago
 - Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 7 months ago
 - Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Updated 3 months ago
 - Code to create a PRG from a Multiple Sequence Alignment file☆25Updated last month