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Use when extracting ITS (Internal Transcribed Spacer) regions from rRNA sequences for fungal, plant, or microbial metabarcoding. Covers ITS1/ITS2 extraction, taxonomic domain filtering, FASTA output f
Use with AI
Install the MCP server or CLI to instantly fetch ITSx documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/itsx
Use when working with the ARTIC viral amplicon sequencing command-line pipeline for Oxford Nanopore data. Covers documented `artic minion`, `artic guppyplex`, and `artic_get_models` workflows for prim
2 shared topics • 1 shared operation
DADA2 — high-resolution amplicon sequence variant (ASV) inference from Illumina, 454, and Ion Torrent amplicon sequencing data. R/Bioconductor package that models sequencing errors to resolve exact bi
2 shared topics • 1 shared operation
LotuS2 (Less OTU Scripts 2) — ultrafast amplicon sequencing pipeline for 16S, 18S, 23S, 28S, and ITS marker gene analysis of microbial communities. Processes raw FASTQ/FASTA through demultiplexing (sd
2 shared topics • 1 shared operation
Pavian — interactive R/Shiny web application for metagenomics analysis and visualization. Reads classification reports from Kraken, Kraken2, Bracken, MetaPhlAn, DIAMOND+MEGAN, and Centrifuge to genera
2 shared topics • 1 shared operation
VSEARCH — open-source, multithreaded alternative to USEARCH for amplicon and metagenomics sequence analysis. Performs dereplication, chimera detection (de novo and reference-based), OTU/ASV clustering
2 shared topics • 1 shared operation