Alternatives and similar repositories for ANNEXA

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

• human-pangenomics / hprc-tutorials
  ☆18Updated last year
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• novoalab / modPhred
  modPhred is a pipeline for detection of DNA/RNA modifications from raw ONT data
  ☆16Updated last year
• treangenlab / methphaser
  MethPhaser: methylation-based haplotype phasing of human genomes
  ☆49Updated 6 months ago
• LuoGroup2023 / DeChat
  Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat
  ☆23Updated 4 months ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆36Updated last month
• hitbc / gcSV
  ☆21Updated 6 months ago
• maickrau / ribotin
  ☆36Updated last month
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆34Updated 2 months ago
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆30Updated 3 years ago
• salzberg-lab / PSAURON
  PSAURON is a machine learning model for rapid assessment of protein coding gene annotation
  ☆39Updated 5 months ago
• maxfieldk / TE-Seq
  Snakemake pipeline to analyze transposable element 'omics data.
  ☆27Updated 2 weeks ago
• asylvz / SVarp
  Phased structural variant discovery in pangenomes
  ☆35Updated last year
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆50Updated 6 months ago
• zstephens / telogator2
  A method for measuring allele-specific telomere length and characterizing telomere variant repeat sequences from long reads.
  ☆20Updated 3 weeks ago
• SandraLouise / SVJedi-graph
  SV genotyper for long reads with a variation graph
  ☆12Updated last month
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 11 months ago
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆32Updated 2 weeks ago
• jonassibbesen / rpvg
  Method for inferring path posterior probabilities and abundances from pangenome graph read alignments
  ☆57Updated last week
• lh3 / minisplice
  Scoring GT/AG sites for improving spliced alignment
  ☆45Updated 2 months ago
• agshumate / LiftoffTools
  ☆27Updated 2 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆27Updated last week
• hahnlab / CAGEE
  Computational Analysis of Gene Expression Evolution
  ☆43Updated 3 weeks ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆22Updated 10 months ago
• Maggi-Chen / FusionSeeker
  A gene fusion caller for long-read transcriptome sequencing data.
  ☆19Updated last year
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 9 months ago
• Parsoa / SVDSS
  Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)
  ☆45Updated 2 weeks ago
• dvdylus / read2tree
  ☆19Updated 3 years ago
• lh3 / longdust
  Identify long STRs, VNTRs, satellite DNA and other low-complexity regions in a genome
  ☆61Updated last week