Alternatives and similar repositories for pan-genome-analysis:

Users that are interested in pan-genome-analysis are comparing it to the libraries listed below

• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆193Updated 10 months ago
• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆144Updated 3 weeks ago
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆141Updated 6 months ago
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆239Updated last year
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆133Updated last year
• klebgenomics / Kleborate
  ☆125Updated 2 months ago
• motu-tool / mOTUs
  motus - a tool for marker gene-based OTU (mOTU) profiling
  ☆153Updated 11 months ago
• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆295Updated last month
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆111Updated last year
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆221Updated last month
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆79Updated this week
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆282Updated this week
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆142Updated this week
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆206Updated 4 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆170Updated 4 years ago
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆163Updated last month
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆199Updated 7 months ago
• biobakery / biobakery_workflows
  bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…
  ☆111Updated 2 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆161Updated 2 months ago
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆133Updated last year
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is inte…
  ☆161Updated last week
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆117Updated last year
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆114Updated last month
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆186Updated 2 months ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆302Updated last week
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆221Updated 3 months ago
• chklovski / CheckM2
  Assessing the quality of metagenome-derived genome bins using machine learning
  ☆204Updated 3 weeks ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆124Updated last month
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆137Updated 3 years ago
• wdecoster / chopper
  ☆183Updated 3 weeks ago