Alternatives and similar repositories for Sim-it:

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

• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆31Updated 3 weeks ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆35Updated last month
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆46Updated 3 years ago
• KolmogorovLab / Wakhan
  Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data
  ☆32Updated this week
• mcfrith / tandem-genotypes
  ☆48Updated 7 months ago
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆48Updated 4 months ago
• piosierra / pantera
  Identification of transposable element families from pangenome polymorphisms
  ☆43Updated 5 months ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆47Updated 5 years ago
• AppliedBioinformatics / runBNG
  An easy way to run BioNano genomic analysis
  ☆27Updated 3 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated last year
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• ablab / VerityMap
  ☆34Updated last year
• shilpagarg / DipAsm
  ☆76Updated 4 years ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆46Updated 11 months ago
• mrvollger / NucFreq
  ☆35Updated 10 months ago
• pangenome / HPRCyear1v2genbank
  building a human pangenome from the HPRCy1v2 genbank accessioned assemblies
  ☆14Updated 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
  ☆15Updated 9 months ago
• PacificBiosciences / sawfish
  Structural variant discovery and genotyping from mapped PacBio HiFi data
  ☆37Updated 2 weeks ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated last year
• benedictpaten / marginPhase
  ☆34Updated 4 years ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 4 years ago
• wtsi-hpag / Scaff10X
  Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads
  ☆22Updated 2 years ago
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 2 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆54Updated 6 years ago
• dfguan / asset
  assembly evaluation tool
  ☆34Updated 2 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 3 years ago
• kakitone / finishingTool
  finshingTool
  ☆55Updated 8 years ago