GATB / bcalmLinks
compacted de Bruijn graph construction in low memory
☆100Updated 2 months ago
Alternatives and similar repositories for bcalm
Users that are interested in bcalm are comparing it to the libraries listed below
Sorting:
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆65Updated 11 months ago
- Substring index for paths in a graph☆60Updated last week
- Genome inference from a population reference graph☆96Updated 9 months ago
- Estimating k-mer coverage histogram of genomics data☆77Updated 2 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Updated 10 months ago
- Adaptive semi-global banded alignment on string graphs☆66Updated 7 years ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆85Updated 3 weeks ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Updated 3 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆134Updated 2 months ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Updated last month
- A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long…☆66Updated 5 years ago
- 🌈Scaffold genome sequence assemblies using linked or long read sequencing data☆94Updated last year
- This is an updated mirror of the original PacBio Read Simulator☆39Updated 7 years ago
- Find all significant local alignments between reads☆141Updated last year
- Yet Another Chimeric Read Detector☆81Updated last year
- A fast K-mer counter for high-fidelity shotgun datasets☆137Updated 3 months ago
- alignment to variation graph inducer☆156Updated 3 weeks ago
- A tool for Racon polishing of miniasm assemblies☆78Updated 4 months ago
- A repository for generating strobemers and evalaution☆79Updated last year
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Updated 4 years ago
- Fast and accurate genomic distances using HyperLogLog☆163Updated 2 years ago
- Histosketching Using Little Kmers☆56Updated 2 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆110Updated last year
- k-mer counting software☆39Updated 3 years ago
- Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…☆96Updated 7 months ago
- Implementation of Positional Burrows-Wheeler Transform for genetic data☆112Updated last month
- BWT-based index for graphs☆73Updated 9 months ago
- BWT construction and search☆124Updated 2 weeks ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆92Updated 8 months ago