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ampvis

A package to visualise amplicon data

angus

Materials for Analyzing Next-Generation Sequencing (ANGUS) course.

anvio

An analysis and visualization platform for 'omics data

bioinformatics-training

Bioinformatics training resources

bspm794

cff

Cluster-free Filtering. Determine which sequences are real in a metagenomic sample.

dada2

Accurate sample inference from amplicon data with single nucleotide resolution

dada2_to_qiime

Convert DADA2 seqtabs to QIIME files

dada2helper

data-tutorials

deblur

fast

Fungal Amplicon Sequencing Toolbox beta v1.0

funannotate

Eukaryotic Genome Annotation Pipeline

fungal_genome_annotation

General and specific recipes used for genome annotation of different fungal genomes

fv_c-variants

Detection SNPs leading to branching variants of Fv

gen711

helper-code-for-uparse

homebrew-science

:microscope: Scientific formulae for the Homebrew package manager

mctoolsr

Microbial community analysis tools in R

mevr

Molecular Epidemiology of Viruses in R

oligotyping

Exploring microbial patterns through subtle nucleotide variation within 16S rRNA gene tag sequences of closely related taxa

phangorn

Phylogenetic analysis in R

pipits

qiime

Quantitative Insights Into Microbial Ecology (QIIME): Official repository for software and unit tests

qiime16stutorial

A tutorial on up-to-date methods of 16S analysis with QIIME

rubi-gbs

Genotyping by sequencing (GBS) analysis of P. rubi and P. fragaraie.

swarm

A robust and fast clustering method for amplicon-based studies

vsearch

Versatile open-source tool for metagenomics