Alternatives and similar repositories for two_step_graph_mapper:

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

• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 4 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆29Updated last year
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• lpryszcz / pyScaf
  Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.
  ☆24Updated 6 years ago
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• benoukraflab / NanoVar---archived
  Archived version 1.0.2
  ☆16Updated 5 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 8 months ago
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 2 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• arnederoeck / NanoSatellite
  Dynamic time warping of Oxford Nanopore squiggle data to characterize tandem repeats.
  ☆32Updated 4 years ago
• rlorigro / nanopore_assembly_and_polishing_assessment
  Automation of pipelines that depend on preexisting assembly, polishing, and alignment tools. Performance evaluation and visualization of …
  ☆14Updated 4 years ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 3 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆29Updated 7 months ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 3 weeks ago
• wen-biao / OM-HiC-scaffolding
  Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data
  ☆20Updated 4 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• ACEnglish / adotto
  Working space for the GIAB TR benchmarking project
  ☆21Updated 6 months ago
• Nextomics / nextsv
  ☆34Updated last year
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆55Updated last year
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆25Updated last week