richardmleggett / MARTi

Related projects: ⓘ

• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆46Updated last year
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆48Updated 4 years ago
• klebgenomics / Kaptive
  ☆43Updated 2 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆50Updated 3 weeks ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated last year
• JosephCrispell / homoplasyFinder
  A tool to identify and annotate homoplasies on a phylogeny and sequence alignment
  ☆19Updated 3 years ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆55Updated 2 weeks ago
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆34Updated 2 months ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 4 years ago
• LomanLab / EBAME18
  Long read metagenomics practical at EBAME18
  ☆18Updated 5 years ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆25Updated 11 months ago
• dportik / LRSW-Taxonomic-Profiling-Tutorial
  Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …
  ☆13Updated 2 years ago
• EBI-Metagenomics / mettannotator
  ☆37Updated last month
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆42Updated 4 years ago
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆38Updated 10 months ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆56Updated 2 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆51Updated last year
• stajichlab / AAFTF
  Automatic Assembly For The Fungi
  ☆19Updated last year
• patrickwest / EukRep_Pipeline
  ☆23Updated 5 years ago
• allind / EukDetect
  ☆43Updated 5 months ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆45Updated last year
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆16Updated 2 months ago
• metagenlab / zDB
  zDB: comparative bacterial genomics made easy
  ☆28Updated last month
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆25Updated 3 weeks ago
• wanyuac / GeneMates
  An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences
  ☆24Updated 2 years ago
• MigleSur / GenAPI
  Gene Absence Presence Identification tool.
  ☆26Updated last year
• rrwick / Verticall
  Recombination-free trees
  ☆55Updated last year
• egluckthaler / starfish
  starfish: a modular toolkit for giant mobile element annotation
  ☆26Updated last month
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆54Updated 11 months ago
• aomlomics / tourmaline
  Amplicon sequence processing workflow using QIIME 2 and Snakemake
  ☆42Updated this week