Dedicated ecommerce accounting software will help you keep up with the exhausting and time-consuming task of crunching numbers and managing your books. Whether you’re selling within your local area, nationwide, or around the world, tracking taxes can feel like a full-time position. Accounting and tax mistakes can be detrimental, so skipping steps or rushing the process isn’t a choice.
There are several ecommerce accounting options available, and I put this list together to compare what you can use for your business so you can make the right decision.
What is Ecommerce Accounting Software?
Ecommerce accounting software is a computer tool that helps online store owners track all transactions that take place on their website. This tool allows store owners to manage available inventory and determine sales expenses, profit margins, and other vital details, such as accounts receivables, tax payable, and overhead expenditure. Many platforms are cloud-based, meaning users don’t have to install any software so they can save space on their computers. Operating on the cloud also means they can access accounting records from anywhere on any device. - they just need to log into their account to access the latest figures.
Many ecommerce accounting software provides a suite of solutions, including simplified invoicing and customizable reporting. These platforms will automatically create a customer invoice for every purchase an online visitor makes. Other solutions provide supplier tracking capabilities store owners can use to issue supplier receipts and update inventories.
Yooz is a cloud-based accounts payable automation platform designed to process and approve invoices in real-time.
Why I Picked Yooz: I chose Yooz for ecommerce accounting software after determining its capabilities in providing real-time accounts payable automation based in the cloud. Its distinction lies in being a easy-to-use, cloud-based e-invoicing and purchase-to-pay (P2P) automation solution. It integrates with a variety of ERP and financial systems. The cloud-based system also supports mobile access, handles multiple entities and currencies, offers customizable dashboards, and maintains a user-friendly interface while adhering to security and compliance standards.
The Yooz platform leverages optical character recognition (OCR) technology for Smart Data Capture, enabling automatic extraction of invoice data, which becomes more accurate with each document processed. Additionally, Yooz offers fraud detection capabilities, integrates with over 250 financial systems for data transfer, and provides real-time analytics for insights into accounts payable.
Yooz Standout Features and Integrations
Features include streamlined AP workflows, accounts payable processes, paperless operations, PR/PO creation, AI-based data extraction, and all-in-one P2P automation.
Integrations QuickBooks Desktop Enterprise, Quickbooks Online, Dynamics 365, Xero, SAP Concur, NetSuite, Sage Intacct, SAP Business One, CDK, and MS Dynamics.
- Extremely easy to use software
- Tons of 3rd-party integrations
- Excellent auto matching feature
- Can't sort by document date
- Can be difficult to customize the dashboard
NetSuite ERP offers ecommerce accounting features for large enterprise organizations.
Why I picked NetSuite ERP: The platform specifically helps large enterprises with its cloud-based financial and accounting features. NetSuite ERP can help your business design, transform, and simplify your accounting operations and processes. The software combines foundational finance and accounting capabilities with robust compliance management. This combination can enhance your store’s performance and efficiency while reducing costs.
NetSuite ERP offers large enterprises features you might not normally find in other accounting software. I can support global accounting processes if your store operates in multiple countries worldwide. The analytics within the NetSuite ERP platform will help you understand what you need to do with your accounting operations and how your actions are helping the company.
NetSuite ERP Standout Features and Integrations
Features include accounts payable and receivable, cash management, billing and invoicing, fixed asset management, tax management, multi-currency accounting, general ledgers, purchase orders, expense tracking, and project accounting.
Integrations include BambooHR, Constant Contact, DealRoom, DocuSign, Domo, Fieldmagic, HubSpot Marketing Hub, Ledgible, Mailchimp, Orange Logic, Project Insight, Recurly, TrueCommerce, Twilio Flex, Zendesk, and other software options.
- Easily adaptable for large teams.
- Adding features is intuitive.
- Easy to use and navigate.
- Creating reports is complex.
- Some of the training and guidance aren’t helpful.
NetSuite is a comprehensive, cloud-based software that offers a whole suite of business applications, including ecommerce accounting.
Why I picked Netsuite: I was looking for a tool that could handle all my accounting needs in one place. I needed something that could keep up with the fast pace of ecommerce, and NetSuite seemed to fit the bill. It's designed for businesses of all sizes, so whether you're a small startup or a large corporation, NetSuite has got you covered.
One of the standout features of NetSuite is its real-time financial dashboard. This gives you a bird's eye view of your business's financial health, with up-to-the-minute data on everything from cash flow to sales trends Plus, NetSuite's ecommerce accounting features are pretty robust. It can handle everything from sales tax calculations to multi-currency transactions, which is great if you're selling internationally.
Netsuite Standout Features and Integrations
Features include inventory tracking, forecasting, supplier management, general account ledger, tax management, data import and export, analytics, budgeting, and data visualization.
Integrations include Five9, Concur, Expensify, Kronos Workforce Ready, BambooHR, ProofHQ, Box, Bill.com, Ascentis, Bronto, Boomi, and DocuSign.
- Navigation throughout the platform is easy.
- Remote teams can access the company’s data from anywhere.
- It provides the reports you need to monitor and track transactions.
- It provides the reports you need to monitor and track transactions.
- The software can be complex for new users because of the customization options.
A2X helps businesses focus on their ecommerce stores by integrating with a wide variety of third-party applications to automate accounting processes.
Why I picked A2X: The software is a cloud-based ecommerce accounting solution that can help you direct transactional data from sales platforms such as Shopify, BigCommerce, and Amazon. A2X integrates with other popular ecommerce accounting software, such as Xero and Quickbooks, to easily migrate to your financial records. A2X acts as the missing piece that connects these tools to simplify your back office and unlock new opportunities.
A2X helps businesses of all sizes automate their accounting processes. It can properly categorize and summarize all your transaction to give you complete cash flow visibility. A2X can quickly reconcile your payouts from your sales platforms and automatically make the necessary adjustments to your general ledger to ensure financial accuracy and save time in detecting errors.
A2X Standout Features and Integrations
Features include general ledgers, billing and invoicing, bank reconciliation, multi-currency accounting, analytics and reporting, order management, sales tracking and analysis, inventory management, sales channel management, and data synchronization.
Integrations include Amazon, eBay, Etsy, NetSuite, Quickbooks, Sage Business Cloud Accounting, Shopify, Walmart, and Xero.
- It’s easy to use.
- It provides straightforward integrations.
- Excellent user interface.
- The setup process has a learning curve.
- Customer support needs work.
Zoho Books is an accounting platform that’s included within the Zoho business management suite.
Why I picked Zoho Books: If you currently use any of the products within Zoho, Zoho Books is another application you can use to manage the accounting side of your business. Zoho Books is a cloud-based accounting platform that can help you manage invoicing, inventory, and expense tracking. It’s an end-to-end accounting solution that can automate financial workflows, so you don’t need to worry about time-consuming tasks.
Zoho Books is suitable for small businesses that need a solution that will scale with them as they grow, but it’s fully capable for medium businesses across any industry. The software can help you manage finances, prepare tax information, and work across multiple departments. Zoho Books also provides convenient reporting tools that enable you to get an overview of your store’s performance.
Zoho Books Standout Features and Integrations
Features include invoicing, estimate creation, customer portals, expense receipts management, bill generation, banking reconciliation, project billing, inventory management, sales orders, purchase orders, sales tax tracking, and automated workflows.
Integrations include Avalara, Campaign Monitor, Contractbook, Dropbox, Evernote, Fundbox, Google Drive, HubSpot CRM, Office 365, Slack, Surepayroll, Twilio, Wrike, Zapier, Zendesk, and other software options.
- Simple user interface layout.
- It’s easy to set up banking feeds.
- Users can customize reports.
- Share options need improvement.
- It doesn’t have many advanced features.
Bench is an ecommerce accounting software that provides hands-off financial tools.
Why I picked Bench: The platform is a done-for-you bookkeeping tool that provides the same accounting visual reporting as other options, but it has the bonus of an expert bookkeeper to help you when needed. Bench can help take vital accounting tasks off your hands when you’re having difficulties keeping up with your growing ecommerce store. The vendor has experts to work behind the scenes for you and keep your financial records up-to-date and tax-compliant. Bench also provides expert accounting advice so you can make sense of the reports you see when using the platform.
Bench works for businesses of all sizes that need an all-in-one accounting tool kit. It can connect with the big ecommerce platforms, such as Shopify and BigCommerce. Bench will provide the same accuracy as other options, but the software can save you time because it can handle administrative bookkeeping tasks as well as importing transactions.
Bench Standout Features and Integrations
Features include one-on-one expert support, tax-ready financials, tax filing, financial reporting, expert bookkeeping, custom tax support, cash management, purchase orders, expense tracking, general ledgers, and bank reconciliation.
Integrations include Amazon, BigCommerce, Freshbooks, Shoeboxed, Shopify, Square POS, and Stripe.
- Excellent expense tracking tools.
- Great email and phone support.
- The user interface is easy to use.
- There’s a learning curve to preparing reports.
- It doesn’t connect all business accounts.
Multiview ERP helps businesses break down data silos in their accounting to get more financial visibility.
Why I picked Multiview ERP: The platform is an enterprise resource planning tool that provides you with a single source of truth to enable more visibility in your accounting data. Multiview ERP uses robust features, such as its general ledger capabilities, to give you timely access to the financial information you need. Its business intelligence tools will help you drill down to get the most in-depth finance data from your dashboards and accounting statements.
Multiview ERP is built for any sized business that needs a highly robust accounting tool that’s data-centric. It’s a fully integrated budgeting and forecasting suite that will help you get greater control of data visualizations and forecast accurate financial outlooks. Multiview ERP’s multi-dimensional capabilities provide near-limitless and fully scalable reporting options.
Multiview ERP Standout Features and Integrations
Features include project accounting, general ledgers, fund accounting, accounts payable and receivable, expense tracking, bank reconciliation, billing and invoicing, fixed asset management, cash management, tax management, and purchase orders.
Integrations include ancora Software, Avalara, Azalea EHR, Cerner, EasyVoice, EpicCare EMR, John Daniel Associates, MDI Solutions, Paylocity, Paymerang, and Salesforce.
- Excellent customization capabilities.
- The reports provide a complete information summary.
- Great customer support.
- There’s a steep learning curve.
- The navigation is complex.
Acumatica Cloud ERP provides businesses with accounting tools they can customize to fit their changing needs.
Why I picked Acumatica Cloud ERP: The platform provides extensive customization capabilities that will help you tailor the tool to align with your accounting needs. If you have an experienced developer on your team, you can go further with the customization to tailor your processes and use AI and machine learning technologies to fit your ecommerce store. With Acumatica Cloud ERP, you get a tool that is ready to scale with your business as it grows and integrates with the way your online store works.
Acumatica Cloud ERP is suitable for any sized business that needs an accounting platform that makes all financial data available anytime, anywhere, on any device. With its integrated workflow capabilities, you can gain visibility into financial, project accounting, and inventory management data. Acumatica Cloud ERP also includes the ability to link documents to financial transactions, which will help you simplify information sharing and reduce auditing expenses.
Acumatica Cloud ERP Standout Features and Integrations
Features include order management, expense tracking, billing and invoicing, bank reconciliation, fixed asset management, cash management, accounts payable and receivable, KPIs, sales forecasting, shipping management, and warehouse management.
Integrations include Avalara, BestCPQ, BigCommerce, BudgetEngine, Cleo Integration Cloud, Dropbox, EasyEXP365, HubSpot Operations Hub, Microsoft 365, Paya, Salesforce, ShipMonk, Shopify, Tableau, TrueCommerce, and other software options.
- It’s easy to use.
- The platform is modular.
- Everything is customizable.
- Report creation can be complex.
- The search function is confusing.
Wave Accounting is a basic accounting platform that’s free for all businesses to use.
Why I picked Wave Accounting: The platform is a popular choice because its accounting and invoicing features are free. Wave Accounting allows you to send unlimited customer invoices, set up unlimited organizations, and track all accounts at no cost. You can also use the bank reconciliation feature to link your bank accounts, PayPal accounts, and other data sources for real-time transaction tracking.
Wave Accounting is an excellent choice for small businesses that need a powerful, free, or low-cost accounting system. It’s capable of simplifying your ecommerce store’s financial accounting, invoicing, and tax returns. However, if customers are paying directly from your invoices, you’re required to pay a percentage.
Wave Accounting Standout Features and Integrations
Features include billing portals, online invoicing, customizable invoices, tax management, payroll management, general ledgers, purchase orders, cash management, expense tracking, fixed asset management, fund accounting, and bank reconciliation.
Integrations include Avaza, Boss Insights, Contractbook, Datameer, Easyflow, Google Drive, HoneyBook, HubSpot CRM, Insightly, Integrately, MinuteDock, Pabbly Connect, Railz, Stripe, Zapier, and other software options.
- Easily manages invoices and yearly accounting.
- It can handle multiple businesses.
- The platform is intuitive and user-friendly.
- Users can’t download monthly reports.
- Customer support needs improvement.
Kashoo simplifies accounting for businesses by providing simple features to help manage financials.
Why I picked Kashoo: The software provides simple features that will help you manage your business’s accounting easily. Kashoo provides basic accounting features, such as recurring invoicing and automatically connecting to bank and credit card accounts for quick reconciliation. If you have multiple stores, you can use Kashoo to keep track of all your companies in the same system.
Kashoo is suitable for small businesses that want to automate much of the administrative work that’s involved in accounting. It uses machine learning algorithms to understand your business the more you use it. Kashoo automatically categorizes transactions and organizes them to help you save time and money. The software also has a Smart Inbox feature that automatically tracks vendors that you regularly do business with and prioritizes their emails.
Kashoo Standout Features and Integrations
Features include cash management, billing and invoicing, accounts payable and receivable, general ledgers, purchase orders, and tax management.
Integrations include 1Password Business, Codat, Google Workspace, Green Project, Square Payroll, Uplinq, and other software options.
- Fast and easy to use.
- It works on the cloud.
- Simple implementation.
- The reporting features need improvement.
- The mobile app isn’t robust.
Best purchase-to-pay (P2P) automation solution
15-day free trial
|Pricing upon request||Website|
Best for large enterprises
|Pricing upon request||Website|
Best for real-time tracking and multi-currency support
|Pricing upon request||Website|
Best for integrations
Offers an unlimited free trial
Best for Zoho users
14-day free trial for new paid subscribers
Best for hands-off accounting
Best for financial visibility
|Pricing upon request||Website|
Acumatica Cloud ERP
Best for customizability
|Pricing upon request||Website|
Best free ecommerce accounting software
30-day free trial
Best for simplifying ecommerce accounting
Best for growing teams
- Sage Intacct
Best for accounting workflows
- QuickBooks Online
Best comprehensive accounting platform
Best for automation
Best for simplifying accounting tasks for small businesses.
- SAP Business One
Best for simplifying key accounting processes.
Best for Salesforce users.
Best for managing multiple accounting functions.
Best cloud-based accounting automation tool.
Best for managing cash flows.
Other Types of Ecommerce Financial Software
If you’re looking for more ecommerce financial software for your online business, here are a few hand-picked tools lists you should check:
- Buy-Now-Pay-Later Platforms
- Credit Card Processing
- Ecommerce Sales Tax Software
- Payment Processing Software
How I Selected the Best Ecommerce Accounting Software
Perhaps you're wondering how I selected the best ecommerce accounting software for this list? To build this top 10 list, I evaluated and compared a wide range of ecommerce accounting software with positive user ratings.
After determining my long list of top choices, I further honed my list by using the selection criteria below to see how each platform stacked up against the next one. I also drew on my years of ecommerce experience to pinpoint the features that add a lot of value.
Here’s a short summary of the main selection and evaluation criteria I used to develop my list of the best ecommerce accounting software for this article:
Each ecommerce accounting software should have, at minimum, the following core functionalities in order to qualify for consideration on this list:
- Ability to track money in and money out of a business, and build reports to convey this important to decision-makers
- Ability to handle payroll and the associated taxes or compliance needs
Here are some features the ecommerce accounting platform you implement should have to help you better manage finances:
- Tax Preparation: You can make life easier for you and your accountant with ecommerce accounting software that provides automatic tax calculations, tax reporting, and multiple tax rates.
- Bookkeeping: High-quality accounting software will handle many daily bookkeeping tasks, such as updating ledgers, bank reconciliations, asset depreciation and amortization tracking, and managing payroll and deductions.
- Financial Reporting and Projections: Your ecommerce accounting software will hold financial data and allow you to use this information to create reports and make projections to give you beneficial business intelligence.
- Accounts Receivable: Ecommerce accounting solutions can handle billing and track what customers owe and payments.
- Invoice Processing: The accounting platform you use should, at the very least, be able to handle invoicing, including printing invoices and maintaining basic customer information records, such as names, addresses, and account numbers.
- Variable Wage Schedules: Whether your team is salaried or you pay them by the hour, the platform you choose should accurately calculate what you owe them, including benefits.
- Bank Account Reconciliation: If your business has multiple bank accounts, it’s essential to use accounting software that can keep track of them and reconcile them using a general ledger function and checkbook reconciliation.
- Shipping Tools: These can save you a lot of time by simplifying the shipping process with shipping labels, shipping cost estimations, and shipment tracking tools.
- Inventory Tracking: Ecommerce accounting software that can manage stock and inventory levels and track inventory can help you ensure you don’t over or under-order products.
Any ecommerce software should be easy to learn, use, and navigate. Ecommerce is unique in that you need many software, systems, and tools to keep things up and running. If even one of them is a pain to learn and manage, then it slows the whole process down. Ecommerce accounting software should follow this same guideline. I look for software that has robust training materials, helpful customer support, and an intutive user interface.
Even with the most feature-rich, reasonably priced application at your disposal, it won’t be very helpful to your ecommerce store if the software can’t integrate with your current systems. The software you choose should integrate with third-party solutions such as ecommerce store builders, shipping systems, and payroll applications. Using ecommerce accounting software that works with your current tech stack will ensure you don’t experience any compatibility difficulties that result in possible time-consuming errors.
Value for Price:
It’s important to use an ecommerce accounting solution that provides the features you need at an affordable price and can scale as you grow. You’re going to want a platform that you can continue to use without worrying about switching to a new one. Many tools use tiered pricing that allows you to start using the software at an affordable level and enables you to make a simple transition to a more advanced level down the road. You should use programs that will allow you to pay only for what you need and make it easy to customize your subscription without spending more than necessary.
What are the benefits of ecommerce accounting software?
Can you use Shopify as an accounting software?
Is there any free ecommerce accounting software?
Better Businesses with Ecommerce Accounting Software
Now that you have a better understanding of the different ecommerce accounting software for your business, you can say goodbye to bundled paperwork and complex spreadsheets. The accounting tools above will handle many of the aspects you need to manage your accounting and bookkeeping for your company. As you learned, choosing the best accounting platform that meets your requirements will automate your tasks and help you make better data-driven decisions to help your business grow.
Now that you know what to consider when searching for the best ecommerce accounting software, you can make the best choice for your online store. If you need more software suggestions or ecommerce business advice, sign up for The Ecomm Manager newsletter. When you sign up, you will receive the latest and greatest software lists and expert advice that can enhance your online store’s operations.