Alternatives and similar repositories for gggenomes:

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

• wilkox / gggenes
  ➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2
  ☆527Updated last year
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆399Updated last week
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆557Updated 3 months ago
• mmatschiner / tutorials
  Tutorials on phylogenetic and phylogenomic inference
  ☆377Updated last year
• bactopia / bactopia
  A flexible pipeline for complete analysis of bacterial genomes
  ☆445Updated this week
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆596Updated 10 months ago
• oschwengers / bakta
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆488Updated last week
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆400Updated 2 months ago
• NBISweden / AGAT
  Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
  ☆494Updated this week
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆338Updated 2 years ago
• biobakery / biobakery
  bioBakery tools for meta'omic profiling
  ☆272Updated 5 months ago
• bxlab / metaWRAP
  MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
  ☆416Updated last year
• showteeth / ggcoverage
  Visualize and annotate genomic coverage with ggplot2
  ☆256Updated last month
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆307Updated last year
• picrust / picrust2
  Code, unit tests, and tutorials for running PICRUSt2
  ☆342Updated 2 weeks ago
• biobakery / MetaPhlAn
  MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data
  ☆328Updated last week
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆362Updated 6 months ago
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆307Updated last year
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆221Updated 4 years ago
• metagenome-atlas / atlas
  ATLAS - Three commands to start analyzing your metagenome data
  ☆384Updated 2 months ago
• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆303Updated 3 weeks ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆540Updated 8 months ago
• agshumate / Liftoff
  An accurate GFF3/GTF lift over pipeline
  ☆472Updated last year
• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆338Updated 2 weeks ago
• crazyhottommy / bioinformatics-one-liners
  Bioinformatics one liners from Ming Tang
  ☆481Updated 4 years ago
• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆745Updated 4 months ago
• benjjneb / dada2
  Accurate sample inference from amplicon data with single nucleotide resolution
  ☆487Updated last month
• fbreitwieser / pavian
  🌈 Interactive analysis of metagenomics data
  ☆409Updated 6 months ago
• pachterlab / ffq
  A tool to find sequencing data and metadata from public databases.
  ☆568Updated 7 months ago
• ewels / sra-explorer
  Web application to explore the Sequence Read Archive.
  ☆215Updated this week