PrimerBLAST is an NCBI web tool that combines Primer3 for PCR primer design with BLAST-based specificity checking against NCBI databases. Designs primers for a target sequence, checks them for off-tar
Use with AI
Install the MCP server or CLI to instantly fetch PrimerBLAST documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/primerblast
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
3 shared topics • 1 shared operation
CNVkit -- Python toolkit for detecting copy number variants (CNVs) from targeted DNA sequencing data (hybrid capture, amplicon) and whole-genome sequencing (WGS). Leverages both on-target and off-targ
3 shared topics • 1 shared operation
nf-core/viralrecon — Nextflow pipeline for viral genome reconstruction and analysis from sequencing data. Supports Illumina and Oxford Nanopore reads for SARS-CoV-2, influenza, and other viral genomes
3 shared topics • 1 shared operation
VarScan2 -- Java-based variant caller for somatic and germline SNV/indel detection, copy number analysis, and LOH detection from samtools mpileup output. Supports tumor-normal paired somatic calling,
3 shared topics • 1 shared operation
Use when working with VILOCA, the viral haplotype reconstruction and mutation calling tool for short-read and long-read sequencing data. Covers the `viloca` CLI, `run` and `snv` subcommands, quality-s
3 shared topics • 1 shared operation