bowmanjeffs / paprica

Related projects ⓘ

Alternatives and complementary repositories for paprica

• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆68Updated 4 years ago
• statdivlab / radEmu
  ☆50Updated this week
• jlw-ecoevo / gRodon
  ☆17Updated last year
• eead-csic-compbio / metagenome_Pfam_score
  Protocol for finding informative protein families and then using them to score metagenomic sets.
  ☆9Updated 3 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated last year
• GATB / simka
  Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.
  ☆46Updated 2 years ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆46Updated 2 years ago
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆43Updated 4 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆54Updated 2 years ago
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆56Updated 5 years ago
• lozuponelab / SCNIC
  Sparse Cooccurence Network Investigation for Compositional data
  ☆23Updated 3 weeks ago
• agmcfarland / r_phylogenetics_worshop
  Using ggtree to build phylogenetic trees
  ☆45Updated 2 weeks ago
• gjospin / PhyloSift
  Phylogenetic and taxonomic analysis for genomes and metagenomes
  ☆83Updated 8 years ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆59Updated 3 weeks ago
• geronimp / graftM
  GraftM - Rapid community profiles from metagenomes
  ☆44Updated 4 months ago
• blekhmanlab / biomehorizon
  Plot microbiome time series in parallel
  ☆24Updated last year
• guyleonard / taxdump_edit
  Add new taxa or taxonomic groups to the NCBI Taxdump files
  ☆19Updated 4 years ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆47Updated 2 years ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆63Updated 11 months ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆108Updated 6 months ago
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆70Updated last year
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆91Updated 2 years ago
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆49Updated 4 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆52Updated 2 months ago
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆41Updated last year
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 2 years ago
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆19Updated last year
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆71Updated 11 months ago
• donovan-h-parks / RefineM
  A toolbox for improving metagenome-assembled genomes.
  ☆63Updated 3 years ago