Alternatives and similar repositories for mccortex

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

• iqbal-lab-org / gramtools
  Genome inference from a population reference graph
  ☆96Updated 6 months ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆88Updated 7 years ago
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆95Updated 11 months ago
• BioInf-Wuerzburg / proovread
  PacBio hybrid error correction through iterative short read consensus
  ☆60Updated 6 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆78Updated last month
• nanoporetech / ont-assembly-polish
  ONT assembly and Illumina polishing pipeline
  ☆89Updated 4 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated last week
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆105Updated 4 years ago
• nanoporetech / qcat
  qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.
  ☆81Updated 4 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆119Updated 2 weeks ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆106Updated last month
• nanoporetech / wub
  Tools and software library developed by the ONT Applications group
  ☆64Updated 4 years ago
• jgurtowski / nanocorr
  Error correction for Oxford Nanopore data
  ☆47Updated 4 years ago
• cbg-ethz / shorah
  Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)
  ☆40Updated 2 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆76Updated 9 years ago
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆87Updated 4 years ago
• SorenKarst / longread_umi
  ☆79Updated 5 years ago
• guyduche / Blast2Bam
  Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.
  ☆49Updated 4 years ago
• tseemann / VelvetOptimiser
  Automatically optimise three of Velvet's assembly parameters.
  ☆48Updated 3 years ago
• ChaissonLab / LRA
  Long read aligner
  ☆115Updated 2 years ago
• mw55309 / Kraken_db_install_scripts
  Updated Kraken DB install scripts to cope with new-ish NCBI structure
  ☆48Updated 8 years ago
• fbreitwieser / bamcov
  Quickly calculate and visualize sequence coverage in alignment files
  ☆100Updated 6 years ago
• JustinChu / JupiterPlot
  A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.
  ☆86Updated 11 months ago
• nanoporetech / pomoxis
  Analysis components from Oxford Nanopore Research
  ☆95Updated last year
• bcgsc / LINKS
  ⛓ Long Interval Nucleotide K-mer Scaffolder
  ☆74Updated 6 months ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆74Updated 3 years ago
• mikolmogorov / Ragout
  Chromosome-level scaffolding using multiple references
  ☆162Updated last year
• ryanlayer / stix
  Structural Variant Index
  ☆75Updated 10 months ago
• dentearl / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆109Updated 3 years ago