johnlees / bioinformatics

Related projects ⓘ

Alternatives and complementary repositories for bioinformatics

• Yale-EEB723 / syllabus
  ☆21Updated 5 years ago
• jessiewu / bacterialGWAS
  A pipeline for performing genome-wide association tests for bacterial genomes.
  ☆28Updated 6 years ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆46Updated 2 years ago
• tseemann / scapper
  Whole genome core alignments from multiple draft genomes
  ☆12Updated 8 years ago
• xavierdidelot / BactDating
  Bayesian inference of ancestral dates on bacterial phylogenetic trees
  ☆83Updated last month
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆68Updated 3 years ago
• z0on / GO_MWU
  Rank-based Gene Ontology analysis of gene expression data
  ☆39Updated last year
• blaxterlab / blobology
  Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …
  ☆46Updated 2 years ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• katiesaund / hogwash
  Three bacterial GWAS methods all rolled into one easy-to-use R package
  ☆19Updated 7 months 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
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆43Updated last year
• NBISweden / pipelines-nextflow
  A set of workflows written in Nextflow for Genome Annotation.
  ☆44Updated 4 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• pievos101 / PopGenome
  An Efficient Swiss Army Knife for Population Genomic Analyses in R
  ☆32Updated 6 months ago
• epi2me-labs / wf-16s
  ☆22Updated 2 months ago
• alipirani88 / Comparative_Genomics
  Micro 612 genomics workshop
  ☆36Updated 3 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆25Updated 5 years ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆19Updated 8 years ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆38Updated 6 months ago
• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆56Updated 3 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated last year
• bcgsc / ntEdit
  ✏️ Genome assembly polishing & SNV detection
  ☆64Updated this week
• JosephCrispell / homoplasyFinder
  A tool to identify and annotate homoplasies on a phylogeny and sequence alignment
  ☆19Updated 3 years ago
• raytonghk / genepiper
  GenePiper
  ☆12Updated 2 years ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• liaochenlanruo / pgcgap
  The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline
  ☆38Updated last year
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆58Updated 2 years ago
• katholt / RedDog
  ☆34Updated 2 years ago
• laurentnoe / yass
  genomic alignment similarity search tool
  ☆19Updated 5 months ago