otu

There are 0 repository under otu topic.

• Russel88 / DAtest

  Compare different differential abundance and expression methods

  16sauccompare-methodsdifferential-abundance-methodsdifferential-expressionfalse-positive-controlmarker-gene-analysismetabolomicsmetagenomicsmicrobiomeotuproteomicsrelative-abundancesrnaseq
  Language:R 49

• Grice-Lab / HmmUFOtu

  An HMM and Phylogenetic Placement based Ultra-Fast Taxonomy Assignment Tool for 16S sequencing

  dirichlet-process-mixtureshmmjplacemixture-modelotuphylogenetic-placementphylogeneticstaxonomy-assignment
  Language:C++ 10

• Arkadiy-Garber / Taxonsluice

  Reference-based, heuristic algorithm for identification of potential contaminants in mothur-formatted OTU tables

  otuampliconcontaminationsilvaenvironmental
  Language:Python 2

• lentendu / NetworkNullHPC

  OTU co-occurrence network inferrence base on null model for HPC

  otunetworksnull-modelr
  Language:Shell 2

• Amarilli / belly-button-challenge

  Building an interactive dashboard to explore the Belly Button Biodiversity dataset using JavaScript, D3, Plotly, HTML and CSS.

  d3jshtmljavascriptjsonmicrobial-speciesotuplotlytaxonomy
  Language:JavaScript 1

• scott-rdl / OTU-table-to-KRONA-pie

  This bash script is used to generate a one page KRONA html from a rarified multi samples OTU table.

  kronaotuotu-tablepiekrona-piepage-krona-htmlbioinformaticsbioinformatics-tool
  Language:Shell 1

• mruehlemann / phaat

  PAAT uses phylogenetic trees to refine differential abundance signals

  16s-rrnaotuphylogeny
  Language:R 0

• Sam-Koehler / USDA-ARS-fusarium-community

  R workflows used to analyze microbial community sequence data

  microbiome-analysisphyloseqdeseq2microbiomefusariumotuphylogenetics
  Language:R 0

• zadyson / OTUStalker

  OTUStalker is a small software tool designed to be compatible with QIIME (v1.8.0). Its purpose is to retrieve data pertinent to a single taxonomic group, from a larger (presumably mixed) data set, therefore allowing the user to concentrate their efforts on the specific taxa of interest. In effect, OTUStalker is taking the place of a targeted PCR primer set. OTUStalker requires a number of output files generated by QIIME (v1.8.0), and creates new files allowing re-analysis of the data set using QIIME.

  16sguijavametagenomicsotupcrrdnarrna
  Language:Java 0

• stuartnankai / MasterThesis

  scilifelaboturegression-modelsrandom-forestsvr
  Language:Python