Upload a basecalled run. PlasValidate assembles every plasmid, checks each base against the reads and gives you the sequence with a clear PASS, WARN or FAIL, and the reason. No reference, expected size or account needed. Without a design, a PASS means the reads support the sequence, not that it is your design.
Free for research use · No account needed · Your reads are deleted 24 hours after your run finishes · or run the example in one click
samples reproduced base for base on Oxford Nanopore's public plasmid benchmark, from the reads alone. EPI2ME, given each clone's expected size: 348 (345 in Oxford Nanopore's own published results). The 4 misses are one clone, on four flow cells, that is a mixture in which the design is the minority version.
wall-clock for all 384 samples, four flow cells, on one workstation with 12 CPU threads and nothing else running, with a fifth of EPI2ME's CPU time. EPI2ME took 5.6 hours on the same 12 CPU threads. PlasValidate's polishing used a GPU; EPI2ME ran on CPU.
The first two are checks EPI2ME's clone-validation report doesn't make.
How we measured: the dataset, both tools' settings and CPU time →
Every plasmid gets its own report. It opens with the verdict and why, then shows the annotated map, a Sanger-style view of the reads behind every base, and the checks that catch a mixed or contaminated prep, each against its threshold.
No command line, no installation: it runs on our server and opens in any browser.
Open the example report →
Drag it onto the upload box, or pick it. Every barcode becomes a sample; a sample sheet is optional.
Size from the reads, assembly, a read-guided consensus, Medaka polishing, annotation and 15 quality checks.
Each report opens as soon as it's ready, at its own link. Download the FASTA, GenBank and map.
No account and nothing to install.
Benchmark: Oxford Nanopore's public plasmid_2025.04 dataset (96 designs, each on 4 flow cells: 384 samples, sup basecalls), with EPI2ME wf-clone-validation v1.8.4 in its published configuration on the same workstation; full method. EPI2ME and Oxford Nanopore Technologies are trademarks of Oxford Nanopore Technologies plc; PlasValidate is not affiliated with it.