pablocael / pynearLinks
A python library for efficient KNN search within metric spaces using multiple distance functions.
☆14Updated last year
Alternatives and similar repositories for pynear
Users that are interested in pynear are comparing it to the libraries listed below
Sorting:
- Fast and accurate set similarity estimation via containment min hash☆42Updated last year
- LRBinner is a long-read binning tool published in WABI 2021 proceedings and AMB.☆32Updated 2 years ago
- Python library that facilitates opening, reading, and writing files (and file-like entities like URLs and streams) agnostic of compressio…☆23Updated 8 months ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆17Updated 5 years ago
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Updated 4 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 3 years ago
- Lightweight python library for predicting the difficulty of alignments in phylogenetics☆20Updated 3 weeks ago
- LogLog space version of MinHash by combining ideas from HyperLogLog and b-bit MinHash☆57Updated 5 years ago
- A database for signatures of public genomic sources☆18Updated this week
- A repository for the GenGraph toolkit for the creation and manipulation of graph genomes☆51Updated 4 years ago
- CREST - Classification Resources for Environmnetal Sequence Tags, is a collection of software and databases for taxonomic classification …☆12Updated 3 years ago
- ☆23Updated 2 years ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆17Updated 6 years ago
- Educational implementation of BWT and FM-index☆57Updated 7 years ago
- A fast seed-embed-extend based sequence mapper and aligner☆23Updated last year
- Index kmtricks bf matrices☆46Updated 2 weeks ago
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆59Updated last week
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated 2 years ago
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆69Updated 4 months ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Updated last year
- Approximate nearest neighbour search for microbial genomes based on hash metric☆57Updated 2 weeks ago
- Smith-Waterman database searches with inter-sequence SIMD parallelisation☆60Updated 2 years ago
- A simple Partial Order Aligner based on Lee, Grasso and Sharlow (2002), for education/demonstration purposes☆75Updated last year
- Kraken2 Server☆22Updated last month
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Updated 3 years ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆23Updated last month
- 1-code framework: docs, C-library, and tools☆25Updated 2 months ago
- Just another minhash implementation.☆12Updated 4 months ago
- Build sourmash databases for genbank.☆11Updated 2 years ago
- Iterate over minimizers of a DNA sequence☆31Updated last year