seqan / needleLinks
A fast and space-efficient pre-filter for estimating the quantification of very large collections of nucleotide sequences
☆14Updated last week
Alternatives and similar repositories for needle
Users that are interested in needle are comparing it to the libraries listed below
Sorting:
- Contains the description of a file format to store kmers and associated values☆33Updated 3 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- A k-mer search engine for all Sequence Read Archive public accessions☆32Updated 10 months ago
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆52Updated last week
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Updated 2 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Updated 6 years ago
- ☆28Updated 5 months ago
- Next Index to Query Kmer Intersection☆16Updated 2 years ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated last year
- ☆24Updated 3 weeks ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 7 months ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆45Updated last month
- Histosketching Using Little Kmers☆56Updated 2 years ago
- Construct a Physical Map from Linked Reads☆18Updated last year
- REINDEER REad Index for abuNDancE quERy☆56Updated 2 months ago
- Filter of Pairwise Alignement☆44Updated 3 years ago
- URMAP ultra-fast read mapper☆38Updated 5 years ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆52Updated 6 months ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- De Bruijn graph representation in low memory☆35Updated last year
- A Rust library providing fully dynamic sets of k-mers with high locality☆45Updated 11 months ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆26Updated 3 years ago
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Updated 4 years ago
- An experimental tool to estimate the similarity between all pairs of contigs☆38Updated 4 years ago
- ☆15Updated 7 years ago
- reference free variant assembly☆34Updated 2 years ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆71Updated last year
- ☆12Updated 6 years ago