ExaScience / elprep-benchLinks
elPrep reimplementations in C++ and Java, only for benchmark comparisons
☆10Updated 2 years ago
Alternatives and similar repositories for elprep-bench
Users that are interested in elprep-bench are comparing it to the libraries listed below
Sorting:
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Updated 5 years ago
- ☆13Updated last year
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆84Updated last year
- A tool for merging large BWTs☆26Updated 4 years ago
- FM-index representation of a de Bruijn graph☆27Updated 7 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Updated 5 years ago
- ♥ Essential Functions for DNA Manipulation☆20Updated last week
- Portable Crystal binary distributions for Linux on x86_64☆15Updated 4 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆12Updated 6 years ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- Implicit Interval Tree with Interpolation Index☆41Updated 2 years ago
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆54Updated 5 years ago
- RNAcode - Detecting protein coding genes in multiple sequence alignment☆25Updated 10 months ago
- C++ library for parsing several formats in bioinformatics☆9Updated 2 years ago
- Probabilistic inference of somatic copy number alterations using repeat DNA (FAST-SeqS)☆9Updated 6 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 4 years ago
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆87Updated this week
- Statistical Distributions from R☆12Updated 11 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆41Updated 4 months ago
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆81Updated last year
- Minhash and maxhash library in Python, combining flexibility, expressivity, and performance.☆21Updated 6 months ago
- Parallel Block GZIP☆50Updated 8 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆25Updated last year
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 3 months ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- DartMinHash: Fast Sketching for Weighted Sets☆13Updated 4 years ago
- Simply feedforward neural network☆19Updated 8 years ago
- A fast and space-efficient pre-filter for estimating the quantification of very large collections of nucleotide sequences☆14Updated last week
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- deBGR: An Efficient and Near-Exact Representation of the Weighted de Bruijn Graph☆30Updated 4 years ago