Repositories list

• sdg-assemblers

  Public
  Assembly pipelines based on sdg

  Python

  •

  MIT License

  •1•0•0•0•Updated Nov 26, 2022Nov 26, 2022

• w2rap-contigger

  Public
  An Illumina PE genome contig assembler, can handle large (17Gbp) complex (hexaploid) genomes.

  C++

  •

  MIT License

  •14•44•18•0•Updated Nov 25, 2022Nov 25, 2022

• sdg-threader

  Public
  A hybrid short-and-long read pipeline to analyse complex genomes.

  Python

  •

  MIT License

  •0•0•0•0•Updated Jun 22, 2022Jun 22, 2022

• sdg

  Public
  Sequence Distance Graph framework: graph + reads + mapping + analysis

  C++

  •

  MIT License

  •6•25•20•0•Updated Jun 4, 2022Jun 4, 2022

• satsuma2

  Public
  FFT cross-correlation based synteny aligner, (re)designed to make full use of parallel computing

  C++

  •13•41•24•2•Updated Dec 21, 2021Dec 21, 2021

• bioinfologics.github.io

  Public
  bioinfolgics website

  HTML

  •2•1•0•0•Updated Sep 4, 2021Sep 4, 2021

• skm-tools

  Public
  Skip-mer tools

  Slash

  •

  MIT License

  •4•9•0•0•Updated Sep 4, 2021Sep 4, 2021

• sdg_examples

  Public
  SDG examples

  HTML

  •2•0•0•0•Updated Sep 4, 2021Sep 4, 2021

• Pseudoseq.jl

  Public
  Fake genomes, fake sequencing, real insights.

  simulatorsimulationgenome-assembly+ 6dna-sequencespaired-endlong-readsdna-sequencingdna-assemblylinked-reads

  Julia

  •

  MIT License

  •3•13•3•0•Updated Sep 4, 2021Sep 4, 2021

• wgs-puzzler

  Public
  A simpler wgs puzzle maker

  Python

  •

  MIT License

  •1•0•5•0•Updated Sep 4, 2021Sep 4, 2021

• w2rap

  Public
  WGS (Wheat) Robust Assembly Pipeline

  Python

  •8•22•2•1•Updated Sep 4, 2021Sep 4, 2021

• kmatch

  Public
  simple aligner for very-high-id genomic sequences, based on kmer anchor lists

  C++

  •

  MIT License

  •1•0•0•0•Updated Jun 26, 2017Jun 26, 2017

• assembly_validation

  Public
  Assembly validation scripts

  Python

  •1•1•0•0•Updated Feb 10, 2017Feb 10, 2017