Alternatives and similar repositories for cortex:

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

• wtsi-svi / ReadServer
  Using reference-free compressed data structures to analyse thousands of human genomes (1000 Genomes ReadServer)
  ☆14Updated 7 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• kdm9 / axe
  Rapid competitive read demulitplexer. Made with tries.
  ☆23Updated last year
• nickloman / poredb
  ☆19Updated 8 years ago
• tseemann / homebrew-bioinformatics-linux
  Homebrew formulae for bioinformatics software only available for Linux
  ☆27Updated 5 years ago
• camillescott / shmlast
  blast, shmlast
  ☆22Updated 4 years ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆38Updated 6 months ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 4 years ago
• douglasgscofield / PacBio-utilities
  Collection of utilities for working with PacBio-based assemblies
  ☆13Updated 2 years ago
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 6 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆37Updated last year
• ryanlayer / svv
  Stupid Simple Structural Variant View
  ☆25Updated 8 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• raphael-group / NAIBR
  Novel Adjacency Identification with Barcoded Reads
  ☆13Updated 2 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 2 weeks ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 6 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 5 months ago
• csiro-crop-informatics / biokanga
  An integrated high performance bioinformatics toolkit
  ☆23Updated 5 years ago
• mchaisso / mcutils
  ☆12Updated 3 years ago
• koelling / dnacol
  Color DNA/RNA bases in terminal output
  ☆20Updated 7 years ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 5 years ago
• VGP / vgp-tools
  ☆28Updated this week
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 7 years ago
• hallamlab / LCAStar
  Alternative taxonomic consensus algorithms based on the NCBI taxonomy tree
  ☆16Updated 10 months ago
• NCBI-Codeathons / SWIGG
  A pipeline for making SWIft Genomes in a Graph (SWIGG) using k-mers
  ☆22Updated 5 years ago
• tlawrence3 / FAST
  FAST: Fast Analysis of Sequences Toolbox
  ☆31Updated 5 years ago
• gregorykucherov / spaced-seeds-for-metagenomics
  ☆14Updated 9 years ago
• poreathon / poreathon
  Pipeline for poreathon
  ☆14Updated 10 years ago
• COMBINE-lab / RapClust
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆31Updated 9 months ago