Alternatives and similar repositories for ASMC

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

• lauterbur / Flex-sweep
  Versatile tool for detecting selective sweeps with a variety of ages, strengths, starting allele frequencies, and completeness.
  ☆15Updated last year
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• gjun / muCNV
  ☆20Updated last year
• 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
• PalamaraLab / FastSMC
  FastSMC is a method to quickly and accurately estimate pairwise identical-by-descent (IBD) regions in the genome. FastSMC estimates the a…
  ☆14Updated 3 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆28Updated 4 years ago
• TNTurnerLab / HAT
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
  ☆23Updated last year
• kolikem / loma
  ☆14Updated last year
• pangenome / HPRCyear1v2genbank
  building a human pangenome from the HPRCy1v2 genbank accessioned assemblies
  ☆14Updated 2 years ago
• schneebergerlab / GameteBinning_tetraploid
  This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings
  ☆12Updated 3 years ago
• hubner-lab / GWANN
  ☆13Updated last week
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 11 months ago
• splicebox / PsiCLASS
  Simultaneous multi-sample transcript assembler for RNA-seq data
  ☆17Updated 7 months ago
• bahlolab / superSTR
  A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
  ☆18Updated last month
• bioinfo-ut / GeneToCN
  Gene copy number prediction from k-mer frequencies
  ☆13Updated 11 months ago
• tskit-dev / tsdate
  Infer the age of ancestral nodes in a tree sequence.
  ☆21Updated this week
• luntergroup / polyploid
  Benchmarking variant calling in polyploids
  ☆15Updated 3 years ago
• yanboANU / Kmer2SNP
  ☆26Updated 3 years ago
• ChenHuaLab / HaploSweep
  HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.
  ☆11Updated 9 months ago
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆13Updated 6 years ago
• sinamajidian / phaseme
  A tool set to assess the quality of the per read phasing and reduce the errors.
  ☆12Updated 5 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• Gabaldonlab / haplotypo
  This is the Haplotypo repository
  ☆20Updated last year
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• bioinformatics-centre / AsmVar
  A software for discovery, genotyping and characterization of structural variants
  ☆22Updated 10 months ago
• ComparativeGenomicsToolkit / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆11Updated last week
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• fritzsedlazeck / SURVIVOR_ant
  A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)
  ☆13Updated 7 years ago
• mills-lab / dinumt
  ☆13Updated 3 years ago
• clemgoub / TypeTE
  Genotyping of segregating mobile elements insertions
  ☆19Updated 3 years ago