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
• waldronlab / curatedMetagenomicDataAnalyses
  Analyses in R and Python Using curatedMetagenomicData
  ☆31Updated 2 months ago
• victoriapascal / gutsmash
  gutSMASH
  ☆53Updated 5 months ago
• wdl2459 / ConQuR
  Batch effects removal for microbiome data via conditional quantile regression
  ☆28Updated 2 years ago
• biocore / DEICODE
  Robust Aitchison PCA from sparse count data
  ☆34Updated 2 years ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆22Updated last year
• GraceYoon / SPRING
  Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data
  ☆24Updated 2 years ago
• raeslab / omixer-rpm
  A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
  ☆27Updated 6 years ago
• segalab / SGVFinder
  ☆32Updated last year
• leylabmpi / endoR
  Code and manual of the endoR R-package (Ruaud et al, in preparation).
  ☆12Updated last year
• ggloor / ALDEx_bioc
  ALDEx_bioc is the working directory for updating bioconductor
  ☆28Updated last month
• gavinmdouglas / picrust2_manuscript
  ☆23Updated 5 years ago
• donia-lab / MetaBGC
  A metagenomic strategy for harnessing the chemical repertoire of the human microbiome
  ☆32Updated last year
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆35Updated last year
• microsud / dysbiosisR
  The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
  ☆15Updated 2 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
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆53Updated 4 months ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated 5 months ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆54Updated 3 years ago
• lozuponelab / SCNIC
  Sparse Cooccurence Network Investigation for Compositional data
  ☆24Updated 7 months ago
• biocore / BIRDMAn
  Bayesian Inferential Regression for Differential Microbiome Analysis
  ☆22Updated last year
• twbattaglia / MicrobeDS
  A repository for large-scale microbiome datasets, formatted for phyloseq
  ☆38Updated last year
• biobakery / maaslin3
  MaAsLin3: Microbiome Multivariate Association with Linear Models
  ☆35Updated last week
• jlw-ecoevo / gRodon
  ☆17Updated 2 years ago
• martin-steinegger / kraken-protocol
  Metagenome analysis using the Kraken software suite
  ☆32Updated 2 years ago
• MinJinHa / COZINE
  COmpositional Zero-Inflated Network Estimation
  ☆10Updated last year
• OSS-Lab / MetQy
  Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)
  ☆18Updated 3 years ago
• knightlab-analyses / reference-frames
  ☆20Updated 4 years ago
• Shenhav-and-Korem-labs / SCRuB
  ☆29Updated 5 months ago
• blekhmanlab / biomehorizon
  Plot microbiome time series in parallel
  ☆26Updated last year