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
  ☆539Updated last year
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆405Updated last week
• mmatschiner / tutorials
  Tutorials on phylogenetic and phylogenomic inference
  ☆380Updated last year
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆388Updated 2 months ago
• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆755Updated 6 months ago
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆614Updated 11 months ago
• showteeth / ggcoverage
  Visualize and annotate genomic coverage with ggplot2
  ☆259Updated 3 months ago
• YuLab-SMU / ChIPseeker
  ChIP peak Annotation, Comparison and Visualization
  ☆233Updated 2 weeks ago
• NBISweden / AGAT
  Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
  ☆500Updated 2 weeks ago
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆308Updated last year
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆572Updated 5 months ago
• crazyhottommy / bioinformatics-one-liners
  Bioinformatics one liners from Ming Tang
  ☆483Updated 4 years ago
• oschwengers / bakta
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆505Updated last month
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆409Updated 4 months ago
• noriakis / ggkegg
  Analyzing and visualizing KEGG information using the grammar of graphics
  ☆227Updated last month
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆339Updated 9 months ago
• picrust / picrust2
  Code, unit tests, and tutorials for running PICRUSt2
  ☆346Updated 3 weeks ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆309Updated last year
• usadellab / Trimmomatic
  ☆242Updated 11 months ago
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆323Updated last month
• cxli233 / SimpleTidy_GeneCoEx
  A simple gene co-expression analyses workflow powered by tidyverse and graph analyses
  ☆201Updated 9 months ago
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆433Updated last week
• biobakery / biobakery
  bioBakery tools for meta'omic profiling
  ☆274Updated last month
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆500Updated last month
• jiabowang / GAPIT
  Genome Association Predict Integrate Tools
  ☆199Updated 2 weeks ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆227Updated 4 years ago
• bactopia / bactopia
  A flexible pipeline for complete analysis of bacterial genomes
  ☆456Updated this week
• deweylab / RSEM
  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
  ☆438Updated last year
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆396Updated last week
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆344Updated 3 years ago