SPAAM-community / AncientMetagenomeDir

Related projects ⓘ

Alternatives and complementary repositories for AncientMetagenomeDir

• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆78Updated 2 years ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆63Updated 10 months ago
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆77Updated last year
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆72Updated last year
• agmcfarland / r_phylogenetics_worshop
  Using ggtree to build phylogenetic trees
  ☆45Updated this week
• metageni / SUPER-FOCUS
  A tool for agile functional analysis of shotgun metagenomic data
  ☆23Updated last month
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆70Updated last year
• jhawkey / IS_mapper
  IS mapping software
  ☆51Updated 2 years ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• egonozer / in_silico_pcr
  Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.
  ☆37Updated 4 years ago
• dportik / SuperCRUNCH
  A bioinformatics package for creating, filtering, and manipulating supermatrices and phylogenetic datasets using GenBank and/or local seq…
  ☆42Updated 6 months ago
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆19Updated 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
• Gibbons-Lab / isb_course_2023
  Materials and presentation for the 2023 ISB Microbiome course.
  ☆24Updated last month
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆108Updated 5 months ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆92Updated this week
• AstrobioMike / bit
  Bioinformatics Tools
  ☆81Updated 2 weeks ago
• lmrodriguezr / enveomics
  Scripts and libraries for Environmental Genomics
  ☆37Updated 9 months ago
• treangenlab / emu
  ☆33Updated last month
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 2 years ago
• nvelden / geneviewer
  An R package designed for drawing gene arrow maps
  ☆30Updated 2 months ago
• a-h-b / dadasnake
  Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake
  ☆45Updated 8 months ago
• mdsufz / MuDoGeR
  MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.
  ☆87Updated 3 months ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated last year
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆70Updated 10 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆52Updated last year
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆91Updated 2 years ago
• aomlomics / tourmaline
  Amplicon sequence processing workflow using QIIME 2 and Snakemake
  ☆42Updated this week
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆86Updated last month
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆58Updated last week