Alternatives and similar repositories for mbtools

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

• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated last month
• DecodeGenetics / LRcaller
  ☆16Updated 4 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 6 months ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆18Updated 5 years ago
• kcleal / svbench
  Benchmark structural variant calls against a reference set
  ☆18Updated last week
• 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
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆28Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 4 years ago
• TNTurnerLab / HAT
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
  ☆24Updated last month
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 9 months ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 5 years ago
• collaborativebioinformatics / GeneVar
  ☆12Updated 4 years ago
• bioinfo-ut / GeneToCN
  Gene copy number prediction from k-mer frequencies
  ☆14Updated last year
• ChaissonLab / TT-Mars
  Structural Variants Assessment Based on Haplotype-resolved Assemblies
  ☆21Updated 2 years ago
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆15Updated 5 months ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 3 years ago
• mchaisso / mcutils
  ☆12Updated 4 months ago
• gjun / muCNV
  ☆20Updated 2 years ago
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆30Updated 7 months ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated this week
• jmonlong / parakit
  Parakit is a tool to analyze the RCCX module, which contain the CYP21A2 gene, using long sequencing reads.
  ☆13Updated 4 months ago
• GP2code / CNV-Finder
  Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.
  ☆12Updated 7 months ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 6 years ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated last month
• luntergroup / polyploid
  Benchmarking variant calling in polyploids
  ☆15Updated 4 years ago
• RitchieLabIGH / iMOKA
  interactive Multi Objective K-mer Analysis
  ☆23Updated 2 years ago