lgautier / mashing-pumpkinsLinks
Minhash and maxhash library in Python, combining flexibility, expressivity, and performance.
☆22Updated 10 months ago
Alternatives and similar repositories for mashing-pumpkins
Users that are interested in mashing-pumpkins are comparing it to the libraries listed below
Sorting:
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Updated 3 years ago
- Sequence Bloom Trees with All/Some split☆11Updated 7 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Updated 6 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Updated 6 years ago
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Updated 3 years ago
- Streaming sequence classification with web services ✓📌☆19Updated 2 years ago
- Johns Hopkins University student-led genomics paper discussion group☆13Updated 5 years ago
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Updated 6 years ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- Histosketching Using Little Kmers☆56Updated 2 years ago
- Flexible omics pipeline☆17Updated 3 weeks ago
- ☆18Updated 7 years ago
- Accurate and fast taxonomic classification using pseudoaligning☆21Updated 8 years ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- nimble aligner that will map your reads to the references on a laptop☆11Updated 8 years ago
- Contains the description of a file format to store kmers and associated values☆33Updated 3 years ago
- ☆13Updated 9 years ago
- Mapping NCBI Genbank accession to GTDB accession☆13Updated 4 years ago
- Rapid and robust analysis of RNA-Seq experiments.☆32Updated 9 years ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Updated 2 years ago
- Fast and accurate set similarity estimation via containment min hash☆42Updated last year
- Build sourmash databases for genbank.☆11Updated 2 years ago
- Benchmark MinION assembler pipelines and publish your results in a heartbeat!☆15Updated 5 years ago
- ☆15Updated 7 years ago
- ☆14Updated 5 years ago
- ☆14Updated 2 years ago
- Parallel implementation of the LAST aligner☆18Updated 8 years ago
- ☆21Updated 11 months ago