Alternatives and similar repositories for ploidyNGS

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

• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆59Updated 2 years ago
• PacificBiosciences / pbtk
  PacBio BAM toolkit
  ☆46Updated 8 months ago
• rhysf / Synima
  Synteny Imager
  ☆65Updated this week
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆42Updated 8 years ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆106Updated 2 months ago
• AppliedBioinformatics / runBNG
  An easy way to run BioNano genomic analysis
  ☆28Updated 4 years ago
• nclark-lab / RERconverge
  Analysis of convergence between organismal traits and DNA/protein sequences
  ☆58Updated 2 weeks ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆48Updated 11 months ago
• kakitone / finishingTool
  finshingTool
  ☆54Updated 8 years ago
• MikkelSchubert / paleomix
  Pipelines and tools for the processing of ancient and modern HTS data.
  ☆47Updated 3 weeks ago
• gatech-genemark / ProtHint
  Protein hint generation pipeline for gene finding in eukaryotic genomes
  ☆60Updated 2 years ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆57Updated 2 years ago
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆62Updated 7 years ago
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 9 years ago
• auton1 / LDhat
  Estimate recombination rates from population genetic data
  ☆68Updated 5 years ago
• rderelle / Broccoli
  orthology assignment using phylogenetic and network analyses
  ☆49Updated last week
• KamilSJaron / k-mer-approaches-for-biodiversity-genomics
  k-mer learning materials
  ☆80Updated 8 months ago
• SAMtoBAM / MUMandCo
  MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation
  ☆75Updated last month
• mapleforest / HaploMerger2
  ☆45Updated 8 years ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆74Updated 4 years ago
• schneebergerlab / findGSE
  findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a ske…
  ☆38Updated last year
• lh3 / srf
  SRF: Satellite Repeat Finder
  ☆98Updated last year
• bwa-mem2 / mm2-fast
  A versatile pairwise aligner for genomic and spliced nucleotide sequences
  ☆57Updated last year
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆52Updated 3 months ago
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆87Updated 4 years ago
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆63Updated 10 months ago
• kjenike / panagram
  ☆66Updated this week
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆93Updated 6 months ago