Alternatives and similar repositories for GeneToCN

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

• TNTurnerLab / HAT
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
  ☆23Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• ktan8 / nanopore_telomere_basecall
  ☆14Updated last year
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆31Updated 3 weeks ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆19Updated 7 months ago
• human-pangenomics / hprc-tutorials
  ☆17Updated last year
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆26Updated 3 weeks ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• lh3 / TRF-mod
  Tandem Repeats Finder: a program to analyze DNA sequences
  ☆16Updated 2 years ago
• zstephens / telogator
  A method for measuring chromosome-specific telomere length from long reads
  ☆21Updated last year
• marbl / training
  Genome Assembly 102
  ☆14Updated 2 months ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 4 years ago
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 3 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• LankyCyril / edgecase
  A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…
  ☆16Updated last year
• clemgoub / TypeTE
  Genotyping of segregating mobile elements insertions
  ☆19Updated 3 years ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 9 months ago
• makovalab-psu / T2T_primate_XY
  ☆12Updated last year
• hitbc / gcSV
  ☆21Updated 4 months ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 7 months ago
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 2 years ago
• splicebox / PsiCLASS
  Simultaneous multi-sample transcript assembler for RNA-seq data
  ☆17Updated 7 months ago
• jts / mbtools
  ☆14Updated last year
• yanboANU / Kmer2SNP
  ☆26Updated 3 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated last month
• kolikem / loma
  ☆14Updated last year
• GP2code / CNV-Finder
  Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.
  ☆11Updated last month
• morispi / LRez
  Standalone tool and library allowing to work with barcoded linked-reads
  ☆12Updated 7 months ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆28Updated 4 years ago