Ledgerly
Bookkeeping for Shopify and Amazon sellers that reads payout files, not bank deposits
QuickBooks sees a $4,200 deposit. Ledgerly sees 847 orders, $380 in Shopify fees, 23 refunds, and your actual gross margin.
Get your first close package by the 5th. Start today.
If your books contain a reconciliation error traceable to a payout we processed, we fix it and refund that month's fee.
Shopify sends you a net payout. QuickBooks records it as revenue. The $380 in fees and 23 refunds that came out before the deposit hit your bank never make it to your books. For bookkeeping for Shopify and Amazon sellers to work, the software needs to read the payout file, not the deposit line.
Most sellers on dual channels try one of two paths. The first is a QuickBooks alternative for ecommerce with a connector app: cleaner bank feeds, but someone still has to map the line items every month. The second is a bookkeeper who asks for the Seller Central disbursement report, the Shopify payout summary, and the inventory cost sheet — and sends the completed books two weeks into the following month. Both paths produce a P&L that's two weeks late and still doesn't show whether your Shopify margin or your Amazon margin is carrying the business, and both require your time to produce it.
The monthly close for a dual-channel seller takes 3–5 hours of reconciliation work before the actual bookkeeping starts. Pulling reports, cross-referencing deposits, calculating COGS from inventory spreadsheets. The books are late because the source data is buried in two separate platform dashboards, and no standard accounting product is built to reach in and read it.
Why Shopify and Amazon Payouts Break Standard Bookkeeping Software
A Shopify payout is a net figure after platform fees, refunds, and Shopify Payments charges have been deducted. By the time it hits your bank, the breakdown is gone. An Amazon disbursement includes FBA fulfillment fees, storage charges, advertising costs, and product revenue in a single wire. QuickBooks and Xero record what arrives. Your business runs on what was inside the payout before it arrived.
The connectors built on top of QuickBooks and Xero parse the payout data, but they deposit that parsed data as journal entries. You or your bookkeeper still has to review each entry, match it to inventory movements, and produce a P&L that ties. The connector solves the import problem. It does not solve the bookkeeping problem. The result is a best bookkeeping software for Amazon sellers category that has a lot of connector apps and very few finished books.
Introducing Ledgerly
Ledgerly reads your Shopify and Amazon payout files directly, breaks each settlement into its component parts, matches units sold to their COGS, and closes your books by the 5th. The reconciliation structure Shopify and Amazon create is what Ledgerly is built around. It replaces the connector-plus-bookkeeper combination with one system that handles both, and delivers a channel-level P&L and COGS schedule your CPA can use without a follow-up call.
What You Get — from $199/month
Payout decomposition engine — Connects directly to Shopify and Amazon Seller Central and breaks each payout into orders, platform fees, refunds, and net proceeds. Files pull automatically; line items map to ledger categories without manual input.
COGS-to-shipment matching — Pulls your inventory cost data each month and matches units shipped to their landed cost, producing an accurate cost-of-goods figure that updates as orders close.
Side-by-side channel margin view — Shows gross revenue, platform fees, refunds, COGS, and net margin for each sales channel in the same screen, updated overnight after each settlement.
Automated ecommerce reconciliation for Amazon settlements — Parses Amazon disbursement reports line by line: FBA fees, storage charges, advertising, and product revenue each land in the correct ledger category automatically.
Shopify payout-to-order matching — Reads Shopify Payments payout summaries and matches each net deposit to the exact orders and refunds it contains, so your bank statement ties to your books without a separate worksheet.
Books-closed-by-the-5th package — Delivers a PDF income statement, channel P&L, and COGS schedule by the 5th of each month, formatted for a CPA, SBA lender, or distribution partner.
Return-adjusted margin tracking — Records refunds against the COGS of the returned item, so the cost of each return shows up in your margin figure rather than as a revenue adjustment.
Channel margin trend view — Compares gross margin by channel across any date range, so a pricing change or ad spend shift shows up in the profitability line within the month it takes effect.
Why $199/month
Manual reconciliation for a dual-channel seller runs 3–5 hours a month. At a bookkeeper's rate of $75–$100/hour, that's $225–$500 before the books are touched. Ledgerly's Starter plan at $199 covers one channel and delivers closed books by the 5th. The Growth plan at $349 covers both Shopify and Amazon, which is where most sellers with meaningful volume operate. Both prices sit below what the reconciliation work alone costs when done by hand.
Who This Is For
You sell on Shopify, Amazon, or both, and your monthly revenue has passed the point where a spreadsheet is good enough.
You have tried a QuickBooks alternative for ecommerce and still spend hours on reconciliation each month.
Your current books show total revenue but can't tell you whether your DTC or your Amazon channel has better margin.
You need financials a lender or distribution partner will accept, and "I'll clean them up before I send them" is no longer a plan.
You want books closed by the 5th, not the 20th, because pricing decisions can't wait for reconciliation to finish.
The Ledgerly Reconciliation Guarantee
If your books contain a reconciliation error traceable to a payout we processed, we correct it and refund that month's fee. Submit a discrepancy within 30 days of the close package and we investigate within 48 hours.
In 60 Days, You'll Have:
Payout files for both sales channels connected and parsing automatically after each settlement.
A channel-level P&L showing gross revenue, fees, refunds, COGS, and net margin updated the day after each settlement.
COGS figures matched to actual units shipped each month, tied to landed cost rather than estimated.
A close package on your desk by the 5th: income statement, channel P&L, COGS schedule, formatted for a CPA or lender without a follow-up call.
The actual gross margin for your Shopify store and your Amazon channel in the same view, so you know which one to grow.
Two months of reconciled historical data you can hand to a bank, distributor, or accountant without a caveat.
Frequently Asked Questions
Is Ledgerly the best bookkeeping software for Amazon sellers who also sell on Shopify?
Most bookkeeping services separate Shopify and Amazon into two reconciliation workflows and charge for both. Ledgerly reads both payout structures in one system and produces a single P&L showing how the channels compare on margin.
Ledgerly vs QuickBooks for ecommerce: what's the difference?
QuickBooks records bank deposits. For an Amazon or Shopify seller, that means the fees, refunds, and platform charges are already gone before QuickBooks sees the number. Ledgerly reads the payout file upstream of the deposit and breaks out every component, so the P&L reflects actual revenue structure rather than net bank activity.
How long does setup take, and do I need to export anything manually?
Setup takes one session. You connect your Shopify and Amazon Seller Central accounts, provide your inventory cost data, and Ledgerly handles the rest. Payout files pull automatically after each settlement.
What if I sell on additional channels — Walmart, Etsy, or my own site?
Ledgerly covers Shopify and Amazon today. If you run a Shopify DTC store alongside a Walmart or Etsy channel, the Shopify side connects fully; Walmart and Etsy support is in development for Q3.
What it is: Bookkeeping built around Shopify and Amazon payout files, reading settlements before they hit your bank.
What you get: Payout reconciliation, COGS-to-shipment matching, side-by-side channel margin view, monthly close package delivered by the 5th.
Price: $199/month (one channel) or $349/month (both channels).
Catch: Covers Shopify and Amazon today. Additional channels in Q3.
Guarantee: Reconciliation error traceable to us? We fix it and refund that month.
Get your first close package by the 5th. Start today.