wh-xu / Hyper-GenLinks
HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors
☆30Updated last year
Alternatives and similar repositories for Hyper-Gen
Users that are interested in Hyper-Gen are comparing it to the libraries listed below
Sorting:
- A novel method for sequence similarity estimation☆28Updated last year
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆28Updated 4 months ago
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Updated last year
- Simple-to-use interactive comparison of two bacterial genomes☆18Updated last week
- software to identify primers that can distinguish genomes☆20Updated last week
- A bioinformatics tool written in Rust to find palindromic sequences in DNA☆38Updated 4 months ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆14Updated 7 months ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Updated last year
- Leviathan: A fast, memory-efficient, and scalable taxonomic and pathway profiler for (pan)genome-resolved metagenomics and metatranscript…☆17Updated last week
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆45Updated 4 months ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- A k-mer search engine for all Sequence Read Archive public accessions☆35Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆18Updated 11 months ago
- sunburst plots for taxonomy - working to update Krona☆42Updated 3 months ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆27Updated 5 months ago
- ☆45Updated last month
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆39Updated 3 months ago
- Viral genome coverage evaluation for metagenomic diagnostics☆27Updated 4 months ago
- A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.☆17Updated last week
- ☆12Updated 7 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 5 months ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Updated last week
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12Updated last year
- Efficient calculation of phylogenetic distance matrices.☆49Updated last year
- Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.☆23Updated 2 months ago
- Manipulate and generate figures for trees in Newick format☆22Updated 4 months ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 8 months ago
- process any file in tabular format. Fasta/fastq/GTF/GFF/VCF/SAM/BED☆21Updated 4 months ago
- Remove human reads from a sequencing run☆46Updated 2 weeks ago