alliblk / genepi-book

Related projects ⓘ

Alternatives and complementary repositories for genepi-book

• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆52Updated 2 months ago
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆16Updated last year
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year
• UPHL-BioNGS / Cecret
  Reference-based consensus creation
  ☆50Updated this week
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆98Updated last month
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆88Updated 2 months ago
• rrwick / Verticall
  Recombination-free trees
  ☆56Updated last year
• bede / hostile
  Precise host read removal
  ☆78Updated last week
• adamhockenberry / bacphlip
  A python library for predicting phage lifestyle based on genome sequence
  ☆35Updated last year
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• microbinfie-hackathon2020 / CSIS
  Code Safety Inspection Service
  ☆20Updated 2 years ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• CDCgov / mycosnp-nf
  CDCgov/mycosnp-nf
  ☆37Updated 2 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆71Updated 3 months ago
• virus-evolution / gofasta
  ☆35Updated 3 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆29Updated last month
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆68Updated last year
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆22Updated 3 weeks ago
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆49Updated 2 months ago
• CDCgov / aquascope
  ☆17Updated last week
• pathoplexus / pathoplexus
  An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
  ☆28Updated this week
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• klebgenomics / Kaptive
  ☆44Updated 2 weeks ago
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆54Updated 2 months ago
• DOH-JDJ0303 / bigbacter-nf
  ☆19Updated last week
• mtisza1 / Cenote-Taker3
  Discover and annotate the virome
  ☆31Updated last month
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆59Updated 3 weeks ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆49Updated this week
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆25Updated 3 weeks ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆70Updated 3 weeks ago