Alternatives and similar repositories for bcalm

Users that are interested in bcalm are comparing it to the libraries listed below

• GATB / gatb-core
  Core library of the Genome Analysis Toolbox with de-Bruijn graph
  ☆64Updated 9 months ago
• pangenome / seqwish
  alignment to variation graph inducer
  ☆150Updated 2 weeks ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆110Updated last year
• jltsiren / gbwt
  Substring index for paths in a graph
  ☆60Updated this week
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• iqbal-lab-org / gramtools
  Genome inference from a population reference graph
  ☆96Updated 7 months ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆67Updated 7 years ago
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆95Updated last year
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated 8 months ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• natir / yacrd
  Yet Another Chimeric Read Detector
  ☆81Updated last year
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆79Updated last year
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆87Updated 4 years ago
• cschin / Peregrine
  Peregrine: Fast Genome Assembler Using SHIMMER Index
  ☆102Updated 3 years ago
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆133Updated 3 weeks ago
• lh3 / ropebwt3
  BWT construction and search
  ☆120Updated 3 weeks ago
• bcgsc / LINKS
  ⛓ Long Interval Nucleotide K-mer Scaffolder
  ☆74Updated 7 months ago
• dnbaker / dashing
  Fast and accurate genomic distances using HyperLogLog
  ☆162Updated 2 years ago
• COMBINE-lab / cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
  ☆90Updated 6 months ago
• yechengxi / DBG2OLC
  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
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆70Updated last week
• thegenemyers / FASTK
  A fast K-mer counter for high-fidelity shotgun datasets
  ☆134Updated 2 months ago
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆73Updated 8 months ago
• vgteam / graph-genomics-review
  Pangenome graphs (review article on graph-based pangenomic methods)
  ☆72Updated 5 years ago
• nanoporetech / ont-assembly-polish
  ONT assembly and Illumina polishing pipeline
  ☆89Updated 4 years ago
• nanoporetech / scrappie
  Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group
  ☆93Updated 3 years ago
• kishwarshafin / helen
  H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
  ☆73Updated 5 years ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆106Updated 2 months ago
• marbl / MHAP
  MinHash Alignment Process (MHAP, pronounced MAP): locality-sensitive hashing to detect long-read overlaps and utilities
  ☆98Updated 3 years ago
• SamStudio8 / reticulatus
  A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
  ☆68Updated 4 years ago