Alternatives and similar repositories for pangraph

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

• pirovc / ganon
  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…
  ☆103Updated this week
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆98Updated 2 weeks ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆104Updated last week
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆81Updated last week
• niemasd / TreeCluster
  Efficient phylogenetic clustering of viral sequences
  ☆90Updated 2 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆88Updated 2 years ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆107Updated 3 weeks ago
• vgl-hub / gfastats
  A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulatio…
  ☆121Updated 8 months ago
• genomehubs / blobtoolkit
  Interactive quality assessment of genome assemblies
  ☆118Updated last week
• bcgsc / ntSynt
  Detecting multi-genome synteny using minimizer graph mapping
  ☆99Updated this week
• Kirk3gaard / 2025-Crowdsource-GPU-basecalling-stats
  A repository for collecting GPU basecalling stats
  ☆75Updated last month
• citiususc / veryfasttree
  Efficient phylogenetic tree inference for massive taxonomic datasets
  ☆141Updated 10 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated 2 months ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years ago
• iqbal-lab-org / pandora
  Pan-genome inference and genotyping with long noisy or short accurate reads
  ☆119Updated last year
• gatech-genemark / ProtHint
  Protein hint generation pipeline for gene finding in eukaryotic genomes
  ☆60Updated 2 years ago
• bede / hostile
  Precise host read removal
  ☆115Updated 5 months ago
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆90Updated 2 weeks ago
• GenomiqueENS / toulligQC
  A post sequencing QC tool for Oxford Nanopore sequencers
  ☆106Updated last week
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆97Updated 8 months ago
• genotoul-bioinfo / dgenies
  Dotplot large Genomes in an Interactive, Efficient and Simple way
  ☆113Updated 2 weeks ago
• metagenlab / mummer2circos
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆108Updated 2 years ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆119Updated this week
• genomicsITER / NanoCLUST
  NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads
  ☆114Updated 2 years ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆103Updated this week
• GATB / simka
  Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.
  ☆51Updated 4 years ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆120Updated last year
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆55Updated last year
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆33Updated 8 months ago
• AllTheBacteria / AllTheBacteria
  Follow up to Grace Blackwell's 661k dataset, for 2023
  ☆130Updated this week