rrna

Amplicon sequencing analysis workflow using DADA2 and QIIME2

Protist Ribosomal Reference database (PR2) - SSU rRNA gene database

SINA - Reference based multiple sequence alignment

Mapping-Assisted Targeted-Assembly for Metagenomics

🧪 Pipeline for detecting Ψ modification

Standardized and Automated MetaBarcoding Analyses workflow (Mirror)

Repository for V-Xtractor an open-source, high-throughput software tool to identify and extract hypervariable regions of small subunit (16S/18S) ribosomal RNA gene sequences

Ribo-seq focused Oligo Design pipeline for experiment-specific Depletion of Ribosomal RNAs

PipeCraft2 is a Graphical User Interface (GUI) for various metabarcoding pipelines

A tool to identify and extract the commonly used ITS folding motifs from a 16s-23s rRNA sequence.

A fast, lightweight Rust preprocessor for rRNA-marker eDNA workflows

Tools for metagenomic assembly processing.

Metabarcoding ampliseq: uso de nf-core/ampliseq para realizar metabarcoding. Adaptado para correr local o en HPC.

Reproducible phylogenetics pipeline: 10-organism SSU rRNA tree of life (MAFFT, ClipKIT, IQ-TREE, FastTree) with a cross-check of the two tree builders.

Perl libraries for handling rRNA annotated multiple sequence alignments, and more

Microbiome analysis pipeline with reference tutorial. This code was written in October 2024 to process rRNA marker gene data (16S and ITS) from rhizosphere soil samples.

OTUStalker is a small software tool designed to be compatible with QIIME (v1.8.0). Its purpose is to retrieve data pertinent to a single taxonomic group, from a larger (presumably mixed) data set, therefore allowing the user to concentrate their efforts on the specific taxa of interest. In effect, OTUStalker is taking the place of a targeted PCR…