alshai / r-indexLinks
An optimal space run-length Burrows-Wheeler transform full-text index
☆27Updated 4 years ago
Alternatives and similar repositories for r-index
Users that are interested in r-index are comparing it to the libraries listed below
Sorting:
- GFA insert into GenomicSQLite☆49Updated 4 years ago
 - Contains the description of a file format to store kmers and associated values☆33Updated 3 years ago
 - de Bruijn Graph-based read aligner☆34Updated 7 years ago
 - a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
 - The Modular Aligner and The Modular SV Caller☆46Updated 2 years ago
 - ☆28Updated 6 months ago
 - Benchmarking pairwise aligners☆36Updated 8 months ago
 - A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 9 months ago
 - Population-scale detection of novel sequence insertions☆27Updated 3 years ago
 - Toolkit for extracting SVs from long sequences and benchmarking variant callers☆13Updated 8 years ago
 - A long read simulator based on badread idea☆22Updated 3 years ago
 - Alignment algorithm for short Illumina reads to a de Bruijn graph☆17Updated 6 years ago
 - ☆24Updated 2 months ago
 - REINDEER REad Index for abuNDancE quERy☆56Updated 3 months ago
 - A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated last year
 - Lift-over alignments from variant-aware references☆34Updated 2 years ago
 - SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated last year
 - Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆27Updated 6 months ago
 - Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.☆11Updated 8 years ago
 - base-accurate DNA sequence alignments using edlib and mashmap2☆32Updated 4 years ago
 - Graph based multi genome aligner☆48Updated 4 years ago
 - Iterate over minimizers of a DNA sequence☆31Updated last year
 - A simple tool to fix PacBio fasta/q that was not properly split into subreads☆16Updated 4 years ago
 - Utilities to detect and profile `het-kmers`☆11Updated last year
 - MONI: A Pangenomic Index for Finding MEMs☆37Updated 7 months ago
 - A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 3 years ago
 - Indel-aware consensus for aligned BAM☆21Updated 2 months ago
 - ☆17Updated 4 years ago
 - Filter of Pairwise Alignement☆44Updated 3 years ago
 - Hidden Markov Model based Copy number caller☆20Updated last year