Alternatives and similar repositories for synteny

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

• sanger-tol / genomeassembly
  Implementation of ToL genome assembly workflows
  ☆24Updated this week
• moshi4 / plot_genome_align_fig
  Plot genome alignment figure using progressiveMauve & genoPlotR
  ☆22Updated 3 years ago
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆38Updated 2 months ago
• bo1929 / krepp
  A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
  ☆16Updated this week
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 6 months ago
• phac-nml / neptune
  Neptune: Genomic Signature Discovery
  ☆20Updated last year
• SR-Martin / alvis
  ☆20Updated last year
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆35Updated 5 months ago
• pierrepeterlongo / back_to_sequences
  ☆45Updated last week
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆40Updated last week
• maxgmarin / panqc
  A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses
  ☆20Updated last year
• brianli314 / palindrome-finder
  A bioinformatics tool written in Rust to find palindromic sequences in DNA
  ☆35Updated 2 months ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆30Updated 3 years ago
• citiususc / BigSeqKit
  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale
  ☆56Updated 2 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆25Updated 6 years ago
• ablab / rnaquast
  Quality assessment of de novo transcriptome assemblies from RNA-Seq data
  ☆25Updated last week
• alejandrogzi / gxf2bed
  fastest GTF/GFF-to-BED converter chilling around
  ☆28Updated last month
• Xiangyang1984 / Gcluster
  A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes
  ☆18Updated last year
• shenwei356 / easy_sbatch
  easy_sbatch - Batch submitting Slurm jobs with script templates
  ☆16Updated 3 years ago
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆23Updated last year
• ewissel / hAMRoaster
  hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance
  ☆22Updated last year
• warp9seq / minimod
  A bioinformatics tool for viewing and calculating base modification frequencies from BAM files
  ☆39Updated this week
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆29Updated 2 months ago
• AliTVTeam / AliTV-perl-interface
  ☆11Updated 4 years ago
• guigolab / FA-nf
  Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow
  ☆18Updated 3 years ago
• rpetit3 / fastq-scan
  Output FASTQ summary statistics in JSON format
  ☆29Updated 3 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• husonlab / phylosketch2
  Sketch phylogenetic trees and networks
  ☆23Updated last week