denglab / SeqSero2

Related projects ⓘ

Alternatives and complementary repositories for SeqSero2

• CDCgov / mycosnp-nf
  CDCgov/mycosnp-nf
  ☆37Updated 2 months ago
• phac-nml / sistr_cmd
  SISTR (Salmonella In Silico Typing Resource) command-line tool
  ☆25Updated last month
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 3 years ago
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆32Updated last month
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆39Updated 3 months ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆68Updated last year
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆38Updated 5 months ago
• jhawkey / IS_mapper
  IS mapping software
  ☆51Updated 2 years ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 2 years ago
• MaestSi / ONTrack
  A MinION-based pipeline for tracking species biodiversity
  ☆12Updated 9 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆38Updated 6 months ago
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆48Updated 7 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆52Updated 2 months ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆51Updated 6 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• rrwick / Metagenomics-Index-Correction
  ☆79Updated last year
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆98Updated last month
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆71Updated 3 months ago
• gem-pasteur / PanACoTA
  PANgenome with Annotations, COre identification, Tree and corresponding Alignments
  ☆72Updated last year
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆47Updated 3 years ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated 7 months ago
• thanhleviet / ISfinder-sequences
  Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…
  ☆61Updated 4 years ago
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆36Updated last month
• klebgenomics / Kaptive
  ☆44Updated 2 weeks ago
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆97Updated 3 years ago
• microbinfie-hackathon2020 / CSIS
  Code Safety Inspection Service
  ☆20Updated 2 years ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆93Updated this week
• DeniRibicic / q2ONT
  Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2
  ☆27Updated 4 years ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆37Updated 11 months ago