Alternatives and similar repositories for LinDA

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

• FrederickHuangLin / ANCOM-BC-Code-Archive
  Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …
  ☆30Updated 4 years ago
• wdl2459 / ConQuR
  Batch effects removal for microbiome data via conditional quantile regression
  ☆30Updated 2 years ago
• victoriapascal / gutsmash
  gutSMASH
  ☆53Updated 6 months ago
• waldronlab / curatedMetagenomicDataAnalyses
  Analyses in R and Python Using curatedMetagenomicData
  ☆32Updated 2 months ago
• gavinmdouglas / picrust2_manuscript
  ☆23Updated 5 years ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆23Updated last year
• ggloor / ALDEx_bioc
  ALDEx_bioc is the working directory for updating bioconductor
  ☆28Updated last month
• twbattaglia / MicrobeDS
  A repository for large-scale microbiome datasets, formatted for phyloseq
  ☆38Updated last year
• raeslab / omixer-rpm
  A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
  ☆27Updated 6 years ago
• jaeyunsung / GMHI_2020
  Scripts for reproducing results shown in Gupta VK et al. "A Predictive Index for Health Status using Species-level Gut Microbiome Profili…
  ☆34Updated 4 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆37Updated last year
• biocore / DEICODE
  Robust Aitchison PCA from sparse count data
  ☆34Updated 2 years ago
• GraceYoon / SPRING
  Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data
  ☆24Updated 2 years ago
• segalab / SGVFinder
  ☆32Updated 2 years ago
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆15Updated 2 years ago
• blekhmanlab / host_gene_microbiome_interactions
  Analysis framework for integrating gut microbiome and host gene expression data
  ☆32Updated 3 years ago
• MinJinHa / COZINE
  COmpositional Zero-Inflated Network Estimation
  ☆10Updated last year
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated last week
• leylabmpi / endoR
  Code and manual of the endoR R-package (Ruaud et al, in preparation).
  ☆12Updated last year
• microbiota / Zhang2019NBT
  Scripts for stat and plot figures in rice microbiome paper
  ☆19Updated 6 years ago
• donia-lab / MetaBGC
  A metagenomic strategy for harnessing the chemical repertoire of the human microbiome
  ☆33Updated last week
• knightlab-analyses / reference-frames
  ☆20Updated 5 years ago
• malucalle / selbal
  selbal: selection of balances for microbial signatures
  ☆31Updated 4 months ago
• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆37Updated 2 months ago
• biocore / BIRDMAn
  Bayesian Inferential Regression for Differential Microbiome Analysis
  ☆22Updated last year
• biobakery / anpan
  ☆10Updated 3 weeks ago
• cafferychen777 / MicrobiomeStat
  Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
  ☆42Updated 2 weeks ago
• YDaiLab / MiMeNet
  ☆18Updated 4 years ago
• FEI38750 / MTD
  MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
  ☆16Updated last year
• borenstein-lab / microbiome-metabolome-curated-data
  ☆70Updated 8 months ago