pmelsted / KmerStreamLinks
Streaming algorithm for computing kmer statistics for massive genomics datasets
☆54Updated 5 years ago
Alternatives and similar repositories for KmerStream
Users that are interested in KmerStream are comparing it to the libraries listed below
Sorting:
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆52Updated last year
- A fast constructor of the compressed de Bruijn graph from many genomes☆41Updated 6 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 5 months ago
- An integrated high performance bioinformatics toolkit☆23Updated 6 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- ☆37Updated 4 years ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 4 years ago
- Histosketching Using Little Kmers☆57Updated 2 years ago
- a wee tool for random access into BGZF files.☆85Updated 7 years ago
- Reference-free variant discovery in large eukaryotic genomes☆41Updated 4 years ago
- Exascale Maximum Likelihood (ExaML) code for phylogenetic inference using MPI☆50Updated 5 years ago
- tools for error correction and working with long read data☆44Updated 10 years ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 4 years ago
- Scripts for implementing read until and other examples.☆31Updated 5 years ago
- reference free variant assembly☆33Updated 2 years ago
- Enhanced Artificial Genome Engine: next generation sequencing reads simulator☆33Updated 5 years ago
- StriDe Assembler☆25Updated 7 years ago
- ☆28Updated 3 months ago
- PacBio BAM C++ library☆21Updated last year
- Substring index for paths in a graph☆60Updated 3 months ago
- Naive de Bruijn graph implementation in python☆37Updated 7 years ago
- An illumina paired-end and mate-pair short read simulator. This project attempts to model as many of the quirks that exist in Illumina da…☆66Updated 10 years ago
- Stupid Simple Structural Variant View☆25Updated 8 years ago
- 10x Genomics Reads Simulator☆45Updated last year
- The CRISPR assembler☆35Updated 4 years ago
- Compare assembly graph file formats☆16Updated 10 years ago
- Error correction for Oxford Nanopore data☆47Updated 4 years ago
- my PhD thesis☆36Updated 6 years ago