Alternatives and similar repositories for synteny

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

• moshi4 / plot_genome_align_fig
  Plot genome alignment figure using progressiveMauve & genoPlotR
  ☆22Updated 3 years ago
• sanger-tol / genomeassembly
  Implementation of ToL genome assembly workflows
  ☆24Updated this week
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆39Updated 2 months ago
• ablab / rnaquast
  Quality assessment of de novo transcriptome assemblies from RNA-Seq data
  ☆25Updated 3 weeks ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year
• SR-Martin / alvis
  ☆20Updated 2 years ago
• gf777 / mitoVGP
  The Vertebrate Genomes Project Mitogenome Assembly Pipeline
  ☆19Updated 2 years ago
• husonlab / phylosketch2
  Sketch phylogenetic trees and networks
  ☆23Updated last week
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆25Updated 6 years ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆29Updated 3 months ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 7 months ago
• dhelekal / CaveDive
  ☆18Updated last year
• maxgmarin / panqc
  A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses
  ☆21Updated last year
• rpetit3 / fastq-scan
  Output FASTQ summary statistics in JSON format
  ☆29Updated 3 years ago
• bo1929 / krepp
  A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
  ☆16Updated last week
• colindaven / guppy_on_slurm
  Splitting and accelerating the Oxford Nanopore basecaller guppy using CPU with the SLURM job scheduler
  ☆16Updated last year
• photocyte / plot_mitochondrial_genome_with_CIRCOS
  ☆16Updated 7 years ago
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆32Updated 3 years ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆35Updated last week
• alevar / tiebrush
  Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)
  ☆17Updated 2 months ago
• guigolab / FA-nf
  Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow
  ☆18Updated 3 years ago
• pierrepeterlongo / back_to_sequences
  ☆45Updated 3 weeks ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 2 years ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆16Updated 7 years ago
• Plant-Food-Research-Open / genepal
  A Nextflow pipeline for genome and pan-genome annotation
  ☆15Updated last month
• enormandeau / snplift
  Transfer coordinates across genomes
  ☆23Updated 6 months ago
• mbhall88 / tbpore
  Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
  ☆12Updated last year
• bioinfologics / w2rap
  WGS (Wheat) Robust Assembly Pipeline
  ☆22Updated 4 years ago