Alternatives and similar repositories for pangenomics

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

• ilyavs / exodus
  ☆11Updated 3 years ago
• zheminzhou / pHierCC
  Hierarchical clustering of cgMLST
  ☆11Updated last year
• Xiangyang1984 / Gcluster
  A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes
  ☆17Updated last year
• songweizhi / BioSAK
  A Swiss-Army-Knife for Bioinformaticians
  ☆12Updated 3 weeks ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆25Updated 2 years ago
• AuReMe / mpwt
  Pathway Tools multiprocessing wrapper (for PathoLogic).
  ☆14Updated 3 months ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆28Updated 2 years ago
• ablab / metaGT
  Pipeline for metagenome and metatranscriptome joint assembly
  ☆21Updated 2 years ago
• id-bioinfo / TIPars
  Taxa Insertion by Parsimony
  ☆14Updated 5 months ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆30Updated 7 months ago
• nterhoeven / blast2bed
  convert a blast output to a bed file
  ☆12Updated 10 years ago
• redsnic / WGA-LP
  A pipeline for whole genome assembly
  ☆16Updated 3 years ago
• dyxstat / HiCBin
  HiCBin: binning metagenomic contigs and recovering metagenome-assembled genomes using Hi-C contact maps
  ☆14Updated 2 years ago
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆32Updated 7 months ago
• BioSina / Panakeia
  Prokaryotic Pangenome Analysis
  ☆24Updated 3 years ago
• mathjeff / Mapper
  Genomic sequence aligner
  ☆26Updated last week
• laxeye / zga
  ZGA prokaryotic genome assembly and annotation pipeline
  ☆12Updated 10 months ago
• cidgoh / bacpaq
  Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data
  ☆10Updated last month
• danny-wilson / genomegaMap
  Within-species genome-wide dN/dS estimation from very many genomes
  ☆21Updated 4 years ago
• moshi4 / FastDTLmapper
  Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method
  ☆15Updated 2 years ago
• attayeb / snaq
  Qiime2 snakemake pipeline
  ☆18Updated last year
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• amromics / panta
  Pan-genome Analysis
  ☆12Updated 2 months ago
• cchauve / HyAsP
  Hybrid Assembler for Plasmids
  ☆10Updated 2 years ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆21Updated 8 months ago
• moshi4 / plot_genome_align_fig
  Plot genome alignment figure using progressiveMauve & genoPlotR
  ☆22Updated 2 years ago
• katholt / sonneityping
  ☆9Updated 2 years ago
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆22Updated 3 months ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆28Updated 3 months ago
• zjshi / snv_analysis_almeida2019
  ☆22Updated 5 years ago