Financial clarity for multi-location Shopify retailers

Bookkeep automates accounting for every store and franchisee — with clean journal entries, payout splitting, deposit transfers, and built-in sales tax compliance across your entire operation.

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Trusted by top ecommerce and retail Shopify brands

Location-level clarity, franchise-ready control

Automated, Store-Level Accounting

Post daily, accrual-based summaries from each POS or ecommerce store.

Separate entries for each store, POS, or ecommerce entity

Consistent mappings across locations

Compatible with QBO, Xero, NetSuite, Sage Intacct

Multi-entity financial reporting

Keep every store, region, or franchisee cleanly separated in your books.

Individual P&Ls and balance sheets

Group-level and consolidated views

Works with any accounting entity structure

Payout splitting & inter-company transfers

Automate Shopify payout allocation and bank transfers across stores and entities.

Transfer BOPIS funds to pickup location

Allocate gift card redemptions back to issuing store

Collect royalties or franchise fees from franchisees

Payout reconciliation

Reconcile every deposit, refund, fee, and tax by location.

Match Shopify payouts to your bank by store

Spot and fix discrepancies automatically

Support for multi-account and franchise banking setups

Integrated sales tax support

Track and file sales tax accurately across jurisdictions.

Map tax settings by store or POS

File at the local, state, or consolidated level

No need for spreadsheets or manual mapping

How payout splitting and deposit automation work

See how Bookkeep supports multi-location and franchise structures — right from Shopify.

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Trusted by retail operators and franchise systems

Shopify Partners

Supporting multi-store or franchise clients? Partner with Bookkeep to streamline accounting and deposit transfers.

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Shopify Employees

Need an accounting solution that handles payouts, franchise fees, and compliance at scale? We’ve got your merchants covered.

Multi-bank settlement for Shopify

Split and transfer payouts by location, automatically

Bookkeep automates payout splitting across bank accounts by store, franchise, or fulfillment location—and transfers funds accordingly. Franchise fees? We collect those too.

Explore Payout Splitting

Sales tax across all channels, filed for you

Bookkeep pulls Shopify’s tax data for each store, POS location, and jurisdiction — then calculates, maps, and files your taxes automatically, without manual work or reconciliation errors.

Explore Sales Tax Automation

What Shopify merchants are saying

See how Bookkeep provides financial clarity for leading Shopify brands.

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“Today, we have the peace of mind that every transaction is perfectly reconciled and that every cent is properly distributed to our franchisees.”

Eric Fortier

Founder

“We now have real-time numbers that I’m confident are right, giving us the ability to do a lot more higher-level analysis, which is better decision-making for the business.”

Brian Thalman

Financial Controller

“I would just simply recommend Bookkeep because of the confidence that it gives when your transactions are posted and it tells me to expect a payment and then the payment comes in that, that boosts my confidence.”

Forrest Allen

Head of Accounting