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otu

Here are 11 public repositories matching this topic...

stuartnankai / MasterThesis

random-forest regression-models otu svr scilifelab

Updated Mar 6, 2018
Python

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.

bioinformatics pie otu otu-table bioinformatics-tool krona krona-pie page-krona-html

Updated May 28, 2018
Shell

mruehlemann / phaat

PAAT uses phylogenetic trees to refine differential abundance signals

phylogeny otu 16s-rrna

Updated Aug 24, 2020
R

Arkadiy-Garber / Taxonsluice

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

amplicon contamination silva otu environmental

Updated Apr 20, 2021
Python

Sam-Koehler / USDA-ARS-fusarium-community

R workflows used to analyze microbial community sequence data

phylogenetics deseq2 microbiome microbiome-analysis phyloseq otu fusarium

Updated Apr 21, 2021
R

Russel88 / DAtest

Compare different differential abundance and expression methods

metagenomics rnaseq auc proteomics metabolomics microbiome false-positive-control differential-expression 16s otu marker-gene-analysis relative-abundances compare-methods differential-abundance-methods

Updated Mar 8, 2022
R

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…

java gui metagenomics rdna pcr 16s rrna otu

Updated Sep 24, 2022
Java

Amarilli / belly-button-challenge

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

javascript html json taxonomy plotly d3js otu microbial-species

Updated Feb 16, 2024
JavaScript

lentendu / NetworkNullHPC

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

r networks otu null-model

Updated Dec 16, 2024
Shell

Grice-Lab / HmmUFOtu

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

hmm phylogenetics mixture-model dirichlet-process-mixtures taxonomy-assignment otu phylogenetic-placement jplace

Updated Nov 7, 2025
C++

CassandraHjo / Rsearch

Rsearch: An R Interface to VSEARCH supporting visualization and parameter tuning

bioinformatics pipeline clustering fasta fastq metabarcoding amplicon 16s denoising otu vsearch sintax metabarcoding-pipeline unoise

Updated Feb 2, 2026
R

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