Alternatives and similar repositories for maaslin3

Users that are interested in maaslin3 are comparing it to the libraries listed below

• Shenhav-and-Korem-labs / SCRuB
  ☆29Updated 4 months ago
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆45Updated last year
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆21Updated last year
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆53Updated 4 months ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆53Updated 2 weeks ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• segalab / SGVFinder
  ☆32Updated last year
• victoriapascal / gutsmash
  gutSMASH
  ☆53Updated 4 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆40Updated 3 weeks ago
• xiaoli-dong / metaerg
  ☆41Updated 4 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆59Updated 2 weeks ago
• wdl2459 / ConQuR
  Batch effects removal for microbiome data via conditional quantile regression
  ☆28Updated 2 years ago
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆52Updated 5 years ago
• ignasrum / hocort
  HoCoRT - Remove specific organisms from sequencing reads
  ☆17Updated 4 months ago
• EBI-Metagenomics / mettannotator
  ☆70Updated last week
• R-Wright-1 / kraken_metaphlan_comparison
  R markdown documents copied from other folders on Dec 15th 2021
  ☆14Updated 2 years ago
• metagenopolis / CroCoDeEL
  CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data
  ☆24Updated this week
• ziyewang / MetaBinner
  ☆53Updated last year
• zheminzhou / PEPPAN
  Phylogeny Enhanded Prediction of PAN-genome
  ☆40Updated 4 years ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆49Updated 2 years ago
• allind / EukDetect
  ☆50Updated last year
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆45Updated 5 years ago
• ivlachos / agamemnon
  Accurate metagenomi/metatranscriptomic analysis pipeline
  ☆23Updated 3 years ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆58Updated 8 months ago
• shandley / hecatomb
  hecatomb is a virome analysis pipeline for analysis of Illumina sequence data
  ☆57Updated this week
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆65Updated 6 months ago
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆35Updated 2 weeks ago
• hoelzer / pocp
  Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.
  ☆26Updated 2 weeks ago
• gatech-genemark / MetaGeneMark-2
  MetaGeneMark-2: Improved Gene Prediction in Metagenomes
  ☆21Updated last year
• mtisza1 / Cenote-Taker3
  Discover and annotate the virome
  ☆42Updated last month