Do I need an account to use Pepkio Tools?

No. Every calculator runs in your browser without sign-in. Create an account only if you want API keys for programmatic access.

Are Pepkio Tools free?

Yes. Pepkio Tools are free to use with no subscription. Open any tool from the catalog and start calculating immediately.

How does the AI assistant work?

Select tools include a built-in AI agent that answers questions about inputs, units, and workflow steps inside the workspace. It does not replace experimental judgment—verify critical calculations at the bench.

Can I access tools via API or MCP?

Yes. Pepkio Tools expose REST and MCP endpoints for automation. See the Tools API & MCP page for manifest URLs, discovery, and run contracts. API keys require a tools:run scope.

Where does my data go when I use a tool?

Calculations run in your browser session. Pepkio does not store your bench inputs unless you explicitly share a link or use the API with your own integration.

Pepkio Tools

Free AI-Assisted Lab Tools

Free, easy-to-use browser tools for everyday bench work. Built-in AI help. No account or install required.

Describe what you want to do

Beyond calculators — Pepkio provides expert bioinformatics analysis for publication-level results.

Tools

Sequence & Oligo

Codon Code Lens

Translate DNA to protein, back-translate with host codon usage, and explore NCBI genetic codes in an interactive codon table — all in one browser workspace, no account.

Codon Host Fit Checker

Compare multi-host codon compatibility with CAI, 5′ mRNA ΔG, GC profiles, and rare-codon bottlenecks—batch FASTA, client-side, free.

DNA RevComp & Primer Toolkit

Reverse, complement, and reverse-complement DNA with inline primer QC (GC%, Wallace Tm, IUPAC support) and batch CSV export — runs in your browser, no account.

Instant Restriction Mapper

Client-side restriction enzyme finder with circular/linear maps, methylation warnings, compatible-end grouping, virtual gel preview, and SVG/PNG export — no server upload.

Oligo QC Bench

Multi-method Tm calculator with GC%, MW, extinction coefficient, hairpin/dimer ΔG, 3′-end risk flags, and batch QC — runs in your browser, no account.

Oligo QC Instant

Batch primer quality checker with GC%, multi-method Tm, hairpin and dimer flags, and exportable QC tables — runs in your browser, no account.

RapidDot Genome Viewer

Browser dot plot for DNA or protein—pairwise, self-repeat, or PAF/BLAST import; SVG export.

Realistic Random Sequence Generator

Generate composition-realistic DNA, RNA, or protein sequences with GC control, dinucleotide-preserving Markov sampling, ORF framing, motifs, homopolymer limits, and reproducible seeded FASTA export.

Seq Regex Studio

Regex playground for FASTA/FASTQ sequence headers — live match highlighting, find-and-replace with capture groups, preset ID templates, CLI export, and shareable permalinks in the browser.

Sequence Property Calculator

Batch FASTA MW, pI, and GC% for DNA, RNA, and protein—CSV export, no account.

Silent Site Forge

Design silent restriction site mutations for SDM and CRISPR dCAPS genotyping—whole-gene input, codon usage alerts, primer design, gel preview, GenBank export—client-side, free.

Tm / Annealing Temperature Calculator

Calculate primer Tm and suggested Ta for single or batch pairs with QC flags—runs in your browser, no account.

Lab Math & Reagents

Bio Unit Converter

Convert µg/mL to nM, OD600 to cells/mL, and dilutions in one workspace—no account.

Molecular Mass Converter

Convert OD, mass, or molar values for DNA, RNA, or protein in one screen—batch NanoDrop, no account.

Molarity Solution Calculator

Weigh powder with hydrate and purity correction, dilute stock, and get bench protocols—free, no account.

Osmo Recipe Solver

Multi-solute osmolarity calculator with real osmotic coefficients, preset buffers, tonicity classification, and bidirectional recipe adjustment — free, no account.

pH Buffer Recipe Calculator

Plan weighed buffer recipes with temp-corrected pH, ionic strength, and shareable protocols—no account. Built-in AI agent assistant support.

pH Buffer Solver

Henderson–Hasselbalch buffer solver with forward and reverse modes, bench recipes, buffer capacity, and cited pKa reference — free, no account.

RCF ↔ RPM Rotor Converter

Convert RPM and ×g with rotor lookup, tri-radius output, and protocol transfer—no account.

Serial Dilution Planner

Plan pipette-ready serial dilutions with 96/384-well plate maps—rounded to your pipettes, no account. Built-in AI agent assistant support.

Unit-Dose Bridge

Convert pharmacological concentration and dose units (µg/mL ↔ µM ↔ mg/kg ↔ mol/kg) with PubChem molecular weight lookup, salt-form adjustment, batch table conversion, and FDA HED species/route dose scaling.

Cell Culture & Assays

Standard Curve & Concentration Calculator

Turn pasted 96-well absorbance into dilution-corrected concentrations with assay-aware curve fitting, QC flags, and PDF export—free, no account.

Confluency & Split/Passage Planner

Plan cell passaging from confluency or cell density—split ratios, volumes, seeding densities, growth prediction, and bench recipes for adherent and suspension cultures.

Doubling Time Tracker

Calculate cell or microbial doubling time and growth rate from counts, OD600, or confluency—2-point or multi-point regression, harvest predictor, passage log.

ELISA Plate Mapper

Visual 96-well ELISA plate layout planner with standard-curve auto-fill, batch unknown assignment, layout validation, and bench-ready exports.

Ladder Lens

Gel electrophoresis band size estimator for DNA/RNA agarose and protein SDS-PAGE gels. Semi-log calibration with dual-ladder smile correction, R² feedback, and exportable methods text.

TransfectionWise

Scale transfection recipes across vessel formats, convert PEI N:P ratios, and split AAV co-transfection mixes—no account. Built-in AI agent assistant support.

Cell Seeding Density Calculator

Scale seeding across well plates, T-flasks, and dishes—viability-adjusted µL, no account. Built-in AI agent assistant support.

Cloning & PCR

ΔΔCt Clarity

qPCR ΔΔCt calculator with transparent error propagation, Pfaffl efficiency correction, plate QC heatmap, and publication-ready fold-change charts.

Ligation Insert Ratio Calculator

Batch ligation calculator with vector:insert molar ratios, per-reaction pipetting volumes, pooled master mix recipes, and kit-matched incubation guidance.

Ligation Ratio Calculator

Multi-ratio ligation calculator with pipetting volumes, pmol tracking, cloning presets, reaction recipes, and Gibson multi-fragment mode — all client-side.

PCR Master Mix Calculator

Plan PCR master mixes for multiple assays—pipette volumes, overage, printable bench sheet. Built-in AI agent assistant support.

Stats & Bioinformatics

Bio Combinatorics Calculator

Exact nPr/nCr and bio-specific combinatorics for index multiplexing, IUPAC primer degeneracy, Hamming barcode capacity, and CRISPR library cell scaling with optional enumeration export.

Bio Table Matchmaker

Merge two biological CSV/TSV tables with automatic gene ID normalization (Ensembl versions, chr prefixes), pre-join diagnostics, five join types, and reproducible R/Python export.

Biostat Test Navigator

Guided statistical test chooser for life-science experiments with automated normality and variance checks, plain-language rationale, and R/Python code export.

DistroGene Probability Calculator

Calculate CRISPR coverage, GO enrichment, variant detection, and barcode collision probabilities with reverse sizing and publication Methods text export.

Dose-Response Curve Fitter

Batch-fit IC50 and EC50 from one CSV with QC flags—free, no account.

HWE Equilibrium Studio

Test Hardy-Weinberg for 2–6 alleles with De Finetti plots and Wright-Fisher simulation—free in the browser, no account.

Matched Null Gene Set Generator

Generate confound-matched random gene sets as negative controls for GSEA, fgsea, and clusterProfiler with balance metrics and GMT export.

Mendelian Cross Solver

Build Punnett squares for five inheritance modes with ratios and export—no account.

pI Charge Consensus

Multi-algorithm isoelectric point calculator with consensus range, charge-vs-pH curve, IEX buffer recommendations, PTM toggles, and FASTA batch mode—client-side, free.

Power & Effect Navigator

Statistical power calculator for t-tests, ANOVA, proportions, and RNA-seq with dropout adjustment, pilot uncertainty correction, power curves, and IACUC/grant justification text.

Safe Table Bio

Gene-safe CSV/TSV table editor — protect identifiers from Excel corruption, HGNC symbol reconciliation, filter/join/reshape/profile, safe XLSX export, and reproducible Python/R/csvtk scripts.

Smart List Overlap

Compare 2–8 gene or item lists with UpSet and Venn views, optional species-aware alias normalization, hypergeometric overlap statistics, and Enrichr export.

Synergy Matrix Lab

Multi-model drug combination synergy calculator for checkerboard dose-response matrices. Computes Bliss, Loewe, HSA, and ZIP scores side-by-side with confidence intervals, IC50 extraction, and publication-ready exports.

Lab Operation & Writing

Bio-Safe Palette Tester

Test custom color palettes for colorblind accessibility and grayscale print readiness with live CVD simulations, conflict detection, auto-fix suggestions, and export snippets.

CRediT Matrix Builder

Build author × CRediT role matrices, generate journal-ready contribution statements, and export CSV or JATS XML. No login — shareable URL state with audit timestamps.

DMP-in-a-Flash

Guided AI-assisted Data Management Plan generator for NIH and NSF grants. Answer a short intake, get funder-compliant editable DMP text with compliance checks and DOCX export. Free, no login.

Figure Panel Mockup Grid

Plan scientific figure layouts with journal presets, drag-resize panels, A/B/C labels, and export PDF/PNG mockups with millimeter dimensions. No login required.

Floor Time — Lab Meeting Clock

Browser-only meeting clock that splits speaking time fairly across lab members with tap-to-pass chess-clock control, color alerts, and post-meeting summaries.

Gene Hypothesis Roulette

Enter a gene symbol to spin citation-backed "What if…?" research hypotheses from MyGene.info pathways, ClinGen diseases, and STRING interactors — shuffle, pin, and export.

Hypothesis Canvas

Browser-based scientific ideation canvas with typed observation → hypothesis → experiment nodes, auto-layout, local save, and PNG/Markdown/JSON export. No account required.

Journal Club Shuffle

Fair presenter and paper rotation for recurring lab journal clubs — weighted shuffle, skip dates, shareable links, and CSV/iCal/Markdown export. No login required.

NIH Modular Budget Builder

Convert personnel effort and salary into NIH modular budget modules with cap-limited salary, fringe, F&A, and PHS398 justification text. Free, no login.

Reagent QR Label Maker

Generate print-ready QR code labels for lab reagents with hazard pictograms, expiry tracking, batch CSV import, and browser print — no account required.

Sample ID Vault

Browser-based pseudonymization that converts sample or subject names into short, unique IDs with password-protected local vault storage — no cloud upload.

API & MCP →Bioinformatics CRO services →API keys

What are Pepkio Tools?

Pepkio Tools are free browser calculators and planners for everyday bench work—serial dilutions, molarity, PCR setup, plate readers, and more—with built-in AI help on select workspaces. No account required.

Key facts about Pepkio Tools
Fact	Detail
Tools available	56 browser calculators for everyday bench work
Categories	6 areas: solution prep, PCR & molecular biology, cell culture, assays & plate readers, population genetics
Cost	Free — no subscription
Account	Not required to run tools in the browser
AI assistant	Built-in help on select tool workspaces when you have questions
API access	REST and MCP via /tools/developers (API key with tools:run scope)

Need programmatic access? Browse the Tools API & MCP docs.

Frequently asked questions about Pepkio Tools

Practical questions about using Pepkio Tools in the browser or via API. For developer endpoints, see Tools API & MCP.

Do I need an account to use Pepkio Tools?: No. Every calculator runs in your browser without sign-in. Create an account only if you want API keys for programmatic access.
Are Pepkio Tools free?: Yes. Pepkio Tools are free to use with no subscription. Open any tool from the catalog and start calculating immediately.
How does the AI assistant work?: Select tools include a built-in AI agent that answers questions about inputs, units, and workflow steps inside the workspace. It does not replace experimental judgment—verify critical calculations at the bench.
Can I access tools via API or MCP?: Yes. Pepkio Tools expose REST and MCP endpoints for automation. See the Tools API & MCP page for manifest URLs, discovery, and run contracts. API keys require a tools:run scope.
Where does my data go when I use a tool?: Calculations run in your browser session. Pepkio does not store your bench inputs unless you explicitly share a link or use the API with your own integration.

Last updated 2026-06-22. Pepkio builds free lab calculators alongside bioinformatics CRO services. Developers: API & MCP.