Tools for visualising microbial community amplicon data
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Apr 17, 2025 - R
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microbial-ecology
Here are 22 public repositories matching this topic...
Various functions for analysis of microbial community data
microbial-communities microbiome 16s microbiome-analysis microbial-ecology amplicon-sequencing null-model
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Nov 16, 2022 - R
Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2022
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Jan 8, 2024 - R
📦BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra models
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Aug 24, 2021 - R
Environmental metagenomics, Spring 2022, Physalia Courses
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Apr 8, 2022 - R
lake itag measurements over nineteen years
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Nov 26, 2024 - R
A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
pipeline metagenomics illumina 16s microbiota illumina-sequencing phyloseq microbial-ecology dada2 16s-seq
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Mar 27, 2025 - R
Supplemental code of the paper "Environmental selection shapes the formation of near-surface groundwater microbiomes".
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Aug 30, 2020 - R
Data and code for LaMartina et al., 2021
microbial-communities milwaukee microbial-ecology sewers 16s-rrna microorganisms wastewater-treatment wastewater-bacterial-communities
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Feb 23, 2022 - R
Microbial co-occurrence network reveals climate and geographic patterns for soil diversity on the planet
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May 9, 2024 - R
Spatial Sampling
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Apr 23, 2025 - R
Scripts for a manuscript titled "Subsurface Microbial Communities Reflect Regional-Scale Groundwater Hydraulic Connectivity" (submitted)
microbial-communities microbiome groundwater microbial-ecology subsurface groundwater-flow microbial-community-assembly regional-scale hydraulic-connectivity
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Jul 10, 2022 - R
Easy testing of rarefaction thresholds on microbial abundance data
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Mar 7, 2025 - R
Data and code for Kimbell et al., 2021
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Apr 14, 2021 - R
PubMed trend analysis of ecological keywords
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Nov 14, 2023 - R
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loulanomics /
Full16S_sewageDatabase
Full-length bacterial 16S rRNA marker genes from a diverse wastewater sample set. LaMartina, et al., ASM Resource Announcement, 2022
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Apr 7, 2022 - R
Interactive and evolving catalogue of microbial interactions based on the framework of Pacheco and Segrè (2019)
scientific-visualization catalogue shiny-apps community-project microbial-ecology microbial-interactions
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Dec 10, 2021 - R
QIIME 2 and R code along with manifests, metadata, inputs, and outputs for duckweed microbiome project (Acosta et al, 2020, Plos One).
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Dec 13, 2020 - R
Script repository related to the data processing and analyses of the study "Evidence of habitat specificity in sponge microbiomes from Antarctica"
antarctica microbiome-analysis microbial-ecology 16s-rrna microbiome-workflow microbiome-analysis-pipelines sponge-microbiome
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Nov 8, 2024 - R
Groundwater bacterial communities evolve over time, exhibiting cyclic similarity patterns in response to multi-annual recharge events
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Mar 14, 2021 - R
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