FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

A Collection of Bioinformatics Projects

Tools for phylogenetic data analysis including visualization and cluster-computing support.

The Celiac Microbiome Repository is a comprehensive collection of all available gut microbiome sequencing datasets that include individuals with celiac disease.

🦠 SporeFlow: 16S, ITS and TEF1 metataxonomics pipeline

The unified functional prediction and comparative analysis for 16S rRNA gene sequencing data

Python-first amplicon denoising — byte-identical to R's DADA2

A unified searchable database of 16S rRNA amplicon libraries

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)

Uses 16S to identify a range of possible species.

Tools for phylogenetic data analysis including visualization and cluster-computing support.

Store results of 16S OTU clsuters to track and compare and analyze.

Docker image running MOTHUR

MIP_ORACLE: Identifies unique target regions with diagnostic significance in pathogens.

16S procedure using Qiime2

Preprocessing for 16S rDNA Illumina reads

List of sequencer runs; QC and run Info from each run, modular display of all existing (uploaded) types of info and statistics.

A general 16S rDNA sequencing analysis pipeline

Reverse Complement PCR (RC-PCR_ Classification pipeline.