R scripts used for analysis of data reported in Comparison of Small Gut and Whole Gut Microbiota of First-Degree Relatives with Adult Patients with Celiac Disease and Controls
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Updated
Dec 18, 2017 - HTML
R scripts used for analysis of data reported in Comparison of Small Gut and Whole Gut Microbiota of First-Degree Relatives with Adult Patients with Celiac Disease and Controls
The impact of transitive annotation on the training of taxonomic classifiers
Statistical and Computational methods for Microbiome Studies.
Primer scripts to produce meaningful visualisations from pre-processed metabarcoding data
This is repository of amplicon sequencing data and bioinformatics pipeline codes for the nectar microbiome of Monkey Flowers.
Here we discuss strategies and workflows to analyse metagenomics datasets
READY TO USE. Repository containing guidelines and templates for archiving amplicon sequencing data with ESS-DIVE repository.
Code associated with the following manuscript, currently in review: M.S. Fischer, N.J. Patel, P.J. De Lorimier, M.F. Traxler "Prescribed fire selects for a pyrophilous soil subcommunity in a northern California mixed conifer forest"
A snakemake pipeline for amplicon (16S, 18S, ITS) sequence analysis using Usearch.
Course repository for Environmental microbiology course (MMB-117) at the University of Helsinki.
Building a pipeline for automated 16S analysis from paired short-reads or long-reads
This repository contains R scripts for data analyses and visualization.
Pipeline for amplicon sequencing projects. OTUs can be build with various methods (usearch,vsearch,uparse,swarm) and classified using the RDP Classifier and SINA. Final output is a BIOM file for downstream processing (Phyloseq/R)
Repo for scripts/codes applied in my studies
hamPCR + Douglas-fir + needle fungi
Analysis of amplicon sequencing data with synthetic spike-in standards
Workflow and R scripts for Giongo et al. (2024)
CRISPRSeqSim is a tool that simulates results of CRISPR/cas editing fragments target sequencing.
Tesis licenciatura "Metataxonómica de bacterias comoindicador de la descarga de xenobióticos por el Anillo de Cenotes en el sedimento de manglar rojo"
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