Alternatives and similar repositories for genomeassembly

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

• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• SouthGreenPlatform / panache
  Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…
  ☆45Updated 2 years ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 4 months ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆43Updated 10 months ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆33Updated 2 months ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆28Updated last week
• JustinChu / ntsm
  This tools counts the number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to comp…
  ☆29Updated 9 months ago
• warp9seq / minimod
  A bioinformatics tool for viewing and calculating base modification frequencies from BAM files
  ☆35Updated last month
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 8 months ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆36Updated last year
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆52Updated 2 years ago
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• kolikem / loma
  ☆14Updated last year
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆39Updated 10 months ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated this week
• gatech-genemark / GeneMark-ETP
  GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology
  ☆23Updated 4 months ago
• brwnj / idplot
  compare sequences to a shared root reference sequence.
  ☆24Updated 3 years ago
• agshumate / LiftoffTools
  ☆27Updated 2 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated last year
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆38Updated last month
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆26Updated 2 months ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 11 months ago
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆30Updated 3 years ago
• pierrepeterlongo / back_to_sequences
  ☆44Updated last month
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 3 months ago
• lh3 / gffio
  ☆32Updated 2 years ago
• OmarOakheart / nPhase
  Ploidy agnostic phasing pipeline and algorithm
  ☆46Updated last year