Alternatives and similar repositories for local-rearrangements:

Users that are interested in local-rearrangements are comparing it to the libraries listed below

• wjidea / defusion
  defusion
  ☆14Updated 3 years ago
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 4 months ago
• makovalab-psu / T2T_primate_XY
  ☆13Updated 7 months ago
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆12Updated 6 years ago
• wtsi-hpag / scaffHiC
  Pipeline for genome scaffolding by modelling distributions of HiC pairs
  ☆10Updated 2 years ago
• XuepengSun / apple_diploid_genomes
  ☆10Updated 4 years ago
• magspho / hifieval
  a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).
  ☆21Updated last year
• MoinSebi / gfa2bin
  ☆14Updated last month
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• marbl / training
  Genome Assembly 102
  ☆13Updated this week
• TNTurnerLab / HAT
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
  ☆23Updated 9 months ago
• T2T-apes / ape_pangenome
  pangenome analyses for complete genomes of great apes (and gibbon)
  ☆17Updated 3 months ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆17Updated last month
• GP2code / CNV-Finder
  Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.
  ☆10Updated last month
• LankyCyril / edgecase
  A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…
  ☆15Updated 11 months ago
• luntergroup / polyploid
  Benchmarking variant calling in polyploids
  ☆13Updated 3 years ago
• Wenfei-Xian / TIPP
  Telomere local assembly, Improved whole genome polish, and Plastid assembly
  ☆15Updated this week
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated 7 months ago
• njdbickhart / GoatAssemblyScripts
  A loose collection of scripts and utilities for processing and analyzing the Goat reference genome assembly
  ☆12Updated 7 years ago
• gtrichard / mummer-ggplot
  Nucmer from Mummer3 followed by ggplot for nicer and more customisable genome alignment plots.
  ☆11Updated 3 years ago
• ktan8 / nanopore_telomere_basecall
  ☆14Updated last year
• davidebolo1993 / cosigt
  ☆14Updated this week
• jnarayan81 / parallelLastz
  parallelLastz: Running Lastz in parallel
  ☆15Updated 4 months ago
• pdishuck / GAVISUNK
  Genome Assembly Validation via Inter-SUNK distances in ONT reads
  ☆11Updated last year
• glogsdon1 / sunk-based_assembly
  ☆15Updated 3 years ago
• jmonlong / pangenome-evaluation
  Pipeline to evaluate pangenomes, e.g. from the variation it contains or how well reads map
  ☆10Updated 3 years ago
• cmdcolin / jbrowse-plugin-mafviewer
  A viewer for multiple alignment format (MAF) files in JBrowse 2
  ☆10Updated last week
• Walfred-MA / Ctyper
  Genotyping of copy number sensitive allele-specific haplotypes
  ☆12Updated 3 weeks ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆16Updated 6 months ago