10 Best Accounting Software for Shopify in 2021

10 Best Accounting Software for Shopify in 2021

So, you tried searching for “accounting” in the Shopify App Store.

And there were 1,207 results. Ouch.

Needless to say, choosing the best accounting software for a Shopify store from that extensive list might be a challenge.

No worries, though. We narrowed down the search for your to ten top-rated accounting software apps.

In this guide:

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How to Choose the Best Shopify Accounting Apps

How did we choose those 10 accounting apps for Shopify? We considered several important factors:

  • Platform integrations—accounting software must easily integrate with Shopify and any other apps (print on demand apps, order shipping apps, etc).
  • In-depth reporting—accounting tools are going to include basic reporting, but if you plan on expanding your eCommerce business, you'll want to make sure that the tool you choose offers advanced, in-depth reporting options.
  • Sales tax configuration—the sales tax can be frustrating to figure out for online businesses. Choose accounting software that makes calculating, collecting, and paying sales tax as simple as possible.
  • High-quality support—the best Shopify accounting software offers solid support options, preferably 24/7 support. One good way to find such an app is to read Shopify store reviews from business owners.

Best Accounting Software for Shopify

The best Shopify accounting software that meet these expectations are:

  • Freshbooks — Pre-built tax categories
  • QuickBooks — Best accounting software for small and mid-sized stores
  • Xero — Includes smart contract management
  • Sage Business Cloud Accounting — Useful time-saving features
  • NetSuite — Powerful automation features for large businesses
  • Wave — Free, perfect for small businesses
  • Botkeeper — Accounting with AI features for automation
  • Bench.co — Extensive reporting features
  • Zoho Books — Very simple to set up and use
  • Versa Cloud ERP — ERP with lean and agile functionality

Here’s more details about these accounting software for Shopify.

1. Freshbooks

Freshbooks - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Plans begin at $4.50 per month

Free Trial: Yes

Freshbooks has several features that make it a great accounting software for a Shopify store. Tax categories are built into the platform, minimizing the time to prepare and file taxes.

Freshbooks has a project tracking feature that lets you split expenses for your projects, which could be helpful for large stores. There’s aso project management features to ensure that your online business is actually turning a profit.

Pros:

  • Smooth onboarding process
  • Tons of automation options
  • Live customer support
  • Highly compliant

2. QuickBooks

QuickBooks - homepage

Platform: Web application, Desktop App on Mac or Windows

Mobile App: Android, iOS

Price: Plans begin at $15 per month

Free Trial: Yes

QuickBooks has long been a popular accounting software for many Shopify businesses. You can use QuickBooks to track your orders and material availability, create customizable invoice templates, send invoice reminders, and track income and expenses on a granular level.

Pros:

  • Easy to use and learn
  • Lots of integrations
  • Great reporting options for accounting
  • Easy to find and fix mistakes
  • Extensive, in-depth accounting reports

3. Xero

Xero - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Plans begin at $5.50 per month

Free Trial: Yes

Xero is a Shopify accounting software app that includes smart contact management, making it easy to merge finances and marketing. Xero’s reporting feature is robust, offering 65+ reports including the standard balance sheet and P&L as well as equity reports showing owner investments and draws.

Pros:

  • Scalable
  • Unlimited users
  • Easy to install and includes access to an advisor
  • Real-time bank feeds and bank reconciliation
  • Estimating/quoting/order process that integrates with your AR

4. Sage Business Cloud Accounting

Sage Business Cloud Accounting - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Plans begin at $10 per month

Free Trial: Yes

Sage is one of our picks for the best accounting software for Shopify in large part due to its time-saving features. With automatic transaction matching, you can connect your bank account and Sage will use AI to memorize your categorization choices. Sage also includes simple invoice reporting and has a beautiful visual interface.

Pros:

  • Highly customizable
  • Industry-specific features
  • Strong inventory reporting function
  • In-depth reporting including monthly, quarterly, and annual financial reports
  • Budgeting, cash flow forecasting, job costing, auditing, and automated workflows

5. NetSuite

NetSuite - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Estimated at $999 per month; contact for a quote

Free Trial: Yes

NetSuite is an enterprise resource planning (ERP) system and is the most expensive Shopify accounting software on our list. NetSuite users can automate financial, order, billing, customer, and inventory management features, so this software is best suited for complex accounting in large online businesses.

Pros:

  • Customizable forms, fields, records, and workflows
  • Easy integrations and flexibility
  • Industry-specific features

Running a new Shopify business and looking to increase sales? Check out this guide:High Traffic, no Sales: 10+ Ways to Get Shopify Sales in One Day

6. Wave

Wave - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Free

Free Trial: Yes

If you're a new online business, you might be wondering how you can get a budget-friendly accounting tool. That's where Wave comes in. With this free Shopify accounting tool, you get fast setup, secure data, and easy linking to your bank and credit card accounts.

Pros:

  • Free
  • PayPal integration
  • Supports multiple businesses
  • Connect from wherever you are
    Running a new Shopify business and looking to increase sales? Check out this guide:
    High Traffic, no Sales: 10+ Ways to Get Shopify Sales in One Day

7. Botkeeper

Botkeeper - homepage

Platform: Web application

Mobile App: no

Price: Plans begin at $79 per month

Free Trial: Yes

Botkeeper is a full-suite system that you can use to automate your bookkeeping with AI. It has an interactive dashboard that shows KPI tracking, trending analytics, data visualization, and both financial and non-financial datasets. There's also a document manager so you can store and share your financial documents online.

Pros:

  • Detailed and accurate reports
  • Excellent user experience
  • Human-supported AI and machine learning to automate accounting tasks

8. Bench.co

Bench co - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Plans begin at $159 per month

Free Trial: Yes

Bench.co is a human-assisted AI accounting app for Shopify. It pulls financial data from your connected bank and credit card accounts to run reports like monthly income and balance sheet statements, tax-ready financial reports, and more. Robust reporting makes Bench.co one of the best accounting software for Shopify.

Pros:

  • Suited for growing online businesses
  • Reliable, expert online support
  • Fast and easy-to-use

9. Zoho Books

Zoho Books - homepage

Platform: Web application

Mobile App: Android, iOS

Price: Plans begin at $90 per year

Free Trial: Yes

Zoho Books is a robust and scalable accounting app for Shopify businesses. It's an end-to-end accounting platform that will help you from negotiations through invoicing. Zoho Books offers role-based user access so you can collaborate with team members on its integrated platform.

Pros:

  • Affordable
  • Tons of useful features
  • Easy to use

10. Versa Cloud ERP

Versa Cloud ERP - homepage

Platform: Web application

Mobile App: no

Price: $99 per month

Free Trial: Yes

If you need multi-currency support, Versa Cloud ERP is a Shopify accounting software to look at. It gives you everything you need to run your Shopify business from a single dashboard including selling, inventory, reordering, dropshipping, returns and refunds, reporting, and more.

Pros:

  • Native Shopify store app
  • Useful and numerous integrations
  • Highly rated customer support

Best Accounting Software for Shopify: Summary

No matter what size Shopify business you have, you can benefit from the right accounting platform.

Once again, the best Shopify accounting software are:

  • Freshbooks
  • QuickBooks
  • Xero
  • Sage Business Cloud Accounting
  • NetSuite
  • Wave
  • Botkeeper
  • Bench.co
  • Zoho Books
  • Versa Cloud ERP

For businesses on the smaller side, we recommend Freshbooks, Xero, and QuickBooks as fantastic options. If you have a larger, enterprise-level business, NetSuite might be more your speed and have everything you need to run your Shopify store from end-to-end. For those of you who are just starting on an eCommerce journey, give Wave a look.

Jacinda Santora
Jacinda Santora

Jacinda Santora is a conversion copywriter specializing in SaaS and B2B (with a strong background in SEO copywriting). She writes high-converting copy using a proprietary process based on studies in human decision-making. Her goal? To make her clients more money.

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