Alternatives and similar repositories for mapping-benchmarking

Users that are interested in mapping-benchmarking are comparing it to the libraries listed below

• jts / smrest
  Tumour-only somatic mutation calling using long reads
  ☆28Updated last year
• smarco / BiWFA-paper
  Bidirectional WFA (Paper)
  ☆48Updated last year
• Parsoa / SVDSS
  Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)
  ☆47Updated 4 months ago
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆38Updated 10 months ago
• ksahlin / ultra
  Long-read splice alignment with high accuracy
  ☆64Updated last year
• PacificBiosciences / pbfusion
  ☆23Updated 8 months ago
• lh3 / panmask
  Easy genomic regions for short-read variant calling
  ☆45Updated 4 months ago
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆38Updated 9 months ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆36Updated 2 years ago
• UCSC-nanopore-cgl / margin
  ☆33Updated 3 years ago
• alejandrogzi / gtfsort
  a lexicographically-based GTF/GFF sorter
  ☆37Updated 9 months ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆40Updated last year
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆51Updated 6 years ago
• HudsonAlpha / CSL_public_benchmark
  Location of public benchmarking; primarily final results
  ☆18Updated 11 months ago
• vpc-ccg / lordfast
  Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.
  ☆40Updated 6 years ago
• yangao07 / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆33Updated last year
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆47Updated 5 years ago
• COMBINE-lab / piscem
  Rust wrapper for the next generation (still currently in C++)
  ☆29Updated 6 months ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 3 years ago
• hoffmangroup / polyidus
  Polyidus provides a framework to catch chimeric DNA sequences with a tale of python
  ☆10Updated 2 years ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 6 months ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 9 months ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Updated 3 years ago
• seryrzu / unialigner
  ☆67Updated last year
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆54Updated 10 months ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆35Updated 8 years ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 6 months ago
• epi2me-labs / fastcat
  Simple utility to concatenate .fastq(.gz) files whilst creating a summary of the sequences.
  ☆51Updated 2 months ago
• wdecoster / kyber
  ☆21Updated last year