Alternatives and similar repositories for bcalm:

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

• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated last month
• jltsiren / gbwt
  Substring index for paths in a graph
  ☆60Updated last month
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆109Updated 6 months ago
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆94Updated 5 months ago
• thegenemyers / FASTK
  A fast K-mer counter for high-fidelity shotgun datasets
  ☆124Updated 2 months ago
• tlemane / kmtricks
  modular k-mer count matrix and Bloom filter construction for large read collections
  ☆83Updated 6 months ago
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆89Updated 4 months ago
• lh3 / ropebwt3
  BWT construction and search
  ☆112Updated last month
• GATB / gatb-core
  Core library of the Genome Analysis Toolbox with de-Bruijn graph
  ☆63Updated 2 months ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆78Updated last year
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆119Updated 3 weeks ago
• GATB / minia
  Minia is a short-read assembler based on a de Bruijn graph
  ☆72Updated 3 months ago
• waveygang / wfmash
  base-accurate DNA sequence alignments using WFA and mashmap3
  ☆186Updated this week
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆51Updated last year
• bcgsc / biobloom
  Create Bloom filters for a given reference and then use it to categorize sequences
  ☆76Updated 4 months ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆78Updated last year
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• pmelsted / bifrost
  Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
  ☆209Updated last year
• algbio / ggcat
  Compacted and colored de Bruijn graph construction and querying
  ☆82Updated this week
• COMBINE-lab / cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
  ☆86Updated this week
• ekg / seqwish
  alignment to variation graph inducer
  ☆147Updated 2 months ago
• thegenemyers / DALIGNER
  Find all significant local alignments between reads
  ☆141Updated 9 months ago
• natir / yacrd
  Yet Another Chimeric Read Detector
  ☆78Updated 5 months ago
• jltsiren / gcsa2
  BWT-based index for graphs
  ☆71Updated last month
• 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…
  ☆65Updated 4 years ago
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆66Updated 5 months ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆100Updated 6 months ago
• iqbal-lab-org / gramtools
  Genome inference from a population reference graph
  ☆96Updated 2 weeks ago
• lbcb-sci / graphmap2
  GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…
  ☆67Updated 2 years ago
• dnbaker / dashing
  Fast and accurate genomic distances using HyperLogLog
  ☆160Updated 2 years ago