Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).
☆306Aug 2, 2026Updated 2 months ago
Alternatives and similar repositories for primer3
Users that are interested in primer3 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Primer3Plus is an advanced web interface for primer3.☆46Apr 26, 2025Updated last year
- Simple oligo analysis and primer design☆194Sep 6, 2026Updated last month
- PCR Primer Quality Control☆77Aug 6, 2026Updated 2 months ago
- A easy-to-use Python API for Primer3 primer design.☆17Nov 10, 2022Updated 3 years ago
- Code for design of diagnostic PCR primers, and metabarcoding markers.☆66Nov 7, 2023Updated 2 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Primer3Web is a simple web interface to primer3.☆17Aug 18, 2021Updated 5 years ago
- ThermoAlign: software for automated primer design☆27Apr 14, 2018Updated 8 years ago
- In-silico PCR, primer design and padlock design for in-situ sequencing☆55Aug 19, 2026Updated last month
- Automatically design multiplex PCR primer pairs for diverse templates☆37May 23, 2024Updated 2 years ago
- PrimerServer2: a high-throughput primer design and specificity-checking platform☆84Dec 5, 2022Updated 3 years ago
- a tool for designing primer panels for multiplex PCR.☆111Feb 5, 2024Updated 2 years ago
- PrimerTree: Visually Assessing the Specificity and Informativeness of Primer Pairs☆53Oct 28, 2025Updated 11 months ago
- Optimise PCR primer-set grouping for genetics research☆21Jun 3, 2026Updated 4 months ago
- Retrieve sequences flanked by an arbitrary number of primers from a nucleotide collection.☆11Jun 11, 2021Updated 5 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- GUI for batch primer design with graphical output for PCR and SNP detection☆17Jun 28, 2026Updated 3 months ago
- Graphical Representation of Ancestral Sequence Predictions☆15Mar 6, 2023Updated 3 years ago
- Predict genic elements as splice sites, exons or genes, along eukaryotic DNA sequences☆18Jul 18, 2026Updated 2 months ago
- Cutadapt removes adapter sequences from sequencing reads☆587Sep 21, 2026Updated 2 weeks ago
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,597Sep 24, 2026Updated 2 weeks ago
- A fast multi-threaded k-mer counter☆553Mar 20, 2024Updated 2 years ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,436Updated this week
- The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacteria…☆50Apr 24, 2024Updated 2 years ago
- Development version of Easyfig☆110Dec 21, 2023Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Tools to process and analyze deep sequencing data.☆768Sep 27, 2026Updated last week
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆57Mar 23, 2026Updated 6 months ago
- Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning…☆230Updated this week
- An R Package for Multiplex PCR Primer Design and Analysis☆31Jul 12, 2025Updated last year
- Mummer alignment tool☆575Feb 4, 2025Updated last year
- An ultrafast and versatile algorithm that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases.☆108Aug 31, 2022Updated 4 years ago
- Pipeline to phase a genome into two homeologous subgenomes. Parental genomes are required.☆10May 22, 2025Updated last year
- Primer Seek in RNA-Seq. Designs RT-PCR primers that validate alternative splicing events from RNA-Seq data.☆13Nov 27, 2016Updated 9 years ago
- ☆12Dec 26, 2018Updated 7 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,254May 19, 2026Updated 4 months ago
- High Resolution Melt Analysis in Python☆20Mar 22, 2022Updated 4 years ago
- ☆33Apr 25, 2022Updated 4 years ago
- Multiplex Primer Design☆21Oct 30, 2020Updated 5 years ago
- Toolkit for processing sequences in FASTA/Q formats☆1,564Jun 1, 2025Updated last year
- Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments☆109Dec 11, 2023Updated 2 years ago
- Python bindings for the TaxonKit library☆43Oct 1, 2026Updated last week