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SIMD-Accelerated¶

Fast approximate primer matching powered by sassy with AVX2/SSE4/NEON support.

IUPAC Support¶

Full IUPAC ambiguity code support (R, Y, S, W, K, M, B, D, H, V, N) in primer sequences.

Multi-Format¶

Reads FASTA and GenBank files with automatic format detection, including gzip/BGZF compressed inputs.

Circular Genomes¶

Handles plasmids and bacterial chromosomes with products that wrap around the origin.

Multi-Threaded¶

Parallel file reading, searching, and compression for maximum throughput.

Compression¶

Transparent gzip/BGZF support for both input and output with parallel decompression.

Quick Start¶

# Install via conda
conda install bioconda::amplirust

# Run in-silico PCR
amplirust \
  -i genome.fasta \
  -p "16S:AGAGTTTGATCMTGGCTCAG:TACGGYTACCTTGTTACGACTT" \
  -o products.fasta

Getting Started

API Reference¶

Auto-generated API documentation from source code is available at the API Reference.

Amplirust