Alternatives and similar repositories for PopIns2

Users that are interested in PopIns2 are comparing it to the libraries listed below

• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆11Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years 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 3 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 4 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 6 years ago
• zeeev / DASVC
  De-novo Assembly Structural Variant Caller
  ☆13Updated 9 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 4 years ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 5 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 9 months ago
• ridgelab / Kmer-SSR
  Fast, Accurate, and Complete SSR Detection in Genomic Sequences
  ☆11Updated 5 years ago
• Parsoa / Nebula
  Ultra-efficient mapping-free structural variation genotyper
  ☆20Updated 4 years ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated last year
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 3 years ago
• bioinformatics-centre / AsmVar
  A software for discovery, genotyping and characterization of structural variants
  ☆22Updated last year
• kcleal / svbench
  Benchmark structural variant calls against a reference set
  ☆18Updated last week
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 5 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆25Updated 4 years ago
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆13Updated 7 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• yanboANU / Kmer2SNP
  ☆26Updated 4 years ago
• TNTurnerLab / HAT
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
  ☆24Updated 2 months ago
• ktan8 / nanopore_telomere_basecall
  ☆15Updated 2 years ago
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆30Updated 7 months ago
• jts / mbtools
  ☆14Updated 2 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆29Updated last year
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆33Updated 4 years ago
• bioinfo-ut / GeneToCN
  Gene copy number prediction from k-mer frequencies
  ☆14Updated last year