metagenomics / denbi-nanopore-training

Related projects ⓘ

Alternatives and complementary repositories for denbi-nanopore-training

• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆56Updated 3 years ago
• phac-nml / sistr_cmd
  SISTR (Salmonella In Silico Typing Resource) command-line tool
  ☆25Updated last month
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆28Updated last year
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated 7 months ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆47Updated 3 years ago
• Psy-Fer / fast5_fetcher
  A tool for fetching nanopore fast5 files after filtering via demultiplexing, alignment, or other, to improve downstream processing effici…
  ☆14Updated 5 years ago
• kakitone / finishingTool
  finshingTool
  ☆54Updated 7 years ago
• B-UMMI / long-read-catalog
  catalog for long-read sequencing tools
  ☆32Updated last year
• katholt / RedDog
  ☆34Updated 2 years ago
• marbl / harvest
  ☆51Updated 3 years ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 3 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆42Updated 4 years ago
• nanoporetech / ont_tutorial_basicqc
  A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt
  ☆30Updated 3 years ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 3 years ago
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆56Updated last year
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆37Updated 11 months ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆68Updated last year
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆22Updated 2 weeks ago
• aubombarely / Organelle_PBA
  A software to assemble chloroplast and mitochodrial genomes using PacBio data
  ☆37Updated 4 years ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆38Updated 6 months ago
• cerebis / bin3C
  Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.
  ☆23Updated 9 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆45Updated 3 years ago
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆53Updated 6 years ago
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆43Updated last year
• elimoss / metagenomics_workflows
  Workflows for metagenomic sequence data processing and analysis.
  ☆17Updated 5 years ago
• nanoporetech / duplex-tools
  Splitting of sequence reads by internal adapter sequence search
  ☆52Updated last year