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1. taxonomic-reference-database taxonomic-reference-database Public

   Code and files used to build reference databases for taxonomic classification of metabarcode sequence data.

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2. QM-qPCR-joint QM-qPCR-joint Public

   Quantitative metabarcoding expanded with a qPCR reference in a joint modelling framework, using data from NOAA hake cruise eDNA samples

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3. spatial_qm spatial_qm Public

   A model to estimate concentrations of environmental DNA for many species, given qPCR and metabarcoding observations, and to simultaneously estimate a latent spatial field for those concentrations.

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4. metabarcoding_QAQC_pipeline metabarcoding_QAQC_pipeline Public

   Pipeline scripts for initial quality control, ASV assignment, taxonomic classification, and preliminary data visualization

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5. Amplification_Bias_Correction Amplification_Bias_Correction Public

   Following QAQC of sequence data using the pipeline in the "metabarcoding_QAQC_pipeline" repository, use this step to correct for any primer- or species-specific biases in amplification efficiency.

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6. Valdiviaetal_2D-eDNA-spatial-distributions Valdiviaetal_2D-eDNA-spatial-distributions Public

   Forked from taniavaldiviac/eDNAoccurrenceSDM

   This repository contains the code used to create large-scale 2D distributions of eDNA from three marine mammal species using a GAM approach. The associated manuscript is currently in preparation fo…

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