Alternatives and similar repositories for MashMap

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

• marbl / Winnowmap
  Long read / genome alignment software
  ☆288Updated 7 months ago
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆278Updated 7 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆252Updated 2 years ago
• lh3 / gfatools
  Tools for manipulating sequence graphs in the GFA and rGFA formats
  ☆227Updated 9 months ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆205Updated 2 years ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆252Updated 11 months ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆218Updated 3 months ago
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆379Updated last year
• Benson-Genomics-Lab / TRF
  Tandem Repeats Finder: a program to analyze DNA sequences
  ☆172Updated 2 years ago
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆244Updated last year
• VGP / vgp-assembly
  VGP repository for the genome assembly working group
  ☆193Updated 2 weeks ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆225Updated 4 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆215Updated 5 months ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆224Updated 3 weeks ago
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆135Updated 4 years ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆221Updated 2 months ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆156Updated 3 years ago
• Gabaldonlab / redundans
  Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
  ☆151Updated last month
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆246Updated last week
• thegenemyers / FASTGA
  Pairwise whole genome aligner
  ☆155Updated last month
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆197Updated 3 months ago
• marbl / verkko
  Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…
  ☆342Updated this week
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆214Updated last month
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆164Updated last year
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆267Updated 5 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆138Updated 3 years ago
• wdecoster / chopper
  ☆194Updated last month
• lbcb-sci / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
  ☆223Updated last year
• isovic / graphmap
  GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…
  ☆182Updated 5 years ago
• waveygang / wfmash
  base-accurate DNA sequence alignments using WFA and mashmap3
  ☆188Updated last week