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The Best Healthcare Accounting Software

The new Accounting Software from FreshBooks helps you take control of your healthcare practice accounting without the stress.

FreshBooks makes my life so much easier. I wish I had this when I first started my business!”

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4.5 stars

FreshBooks offers simple cloud-based accounting software to help your healthcare practice build its business smarter and faster. FreshBooks takes care of the financial health of your practice so you can focus on providing care to your patients. Get started today to send custom invoices, schedule appointments and accept online payments. With award-winning customer service, helpful support is always just a quick email or phone call away. Time is valuable when patients rely on you for vital primary care. Sign up with FreshBooks to save an average of 16 hours each month.

Bookkeeping Software Built for Your Healthcare Business

FreshBooks is the perfect fit for a fast-paced medical practice. It’s an all-in-one accounting solution that manages all your bookkeeping needs, from creating professional invoices to managing cash flow and tracking time for you and your employees. FreshBooks offers seamless integration options to manage your appointment scheduling and payroll directly through your accounting software, saving you time and trouble so you can focus on the health of your patients.

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holding a cell phone

The all-new FreshBooks now supports double-entry bookkeeping, to give you even more data about your healthcare practice’s performance and insights about your growth potential. It can help you plan for your business’s future and save you time and money during tax season. You can even invite your accountant to collaborate on your FreshBooks account at no extra cost so they can access reports and analyze your business data. Watch your healthcare practice grow faster than ever with advanced bookkeeping tools from FreshBooks.

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Help Save Time

You spend long days and evenings tending to patients who rely on your expertise. The last thing you want to do is balance the books at the end of the day. FreshBooks can help you achieve a better work-life balance by automating time-consuming tasks like organizing expenses and running reports.

Look Professional

Your patients rely on you for your professional opinion about their healthcare needs. FreshBooks helps you impress clients with invoices that are as professional as you are. Create sleek invoices and custom estimates that reflect the unique branding and personality of your practice, so you always stand out from the crowd.

Get Paid Faster

Your healthcare practice relies on a steady cash flow to pay your employees and cover your many business expenses. FreshBooks makes it easier than ever for patients to pay their invoices quickly. Get paid 11 days faster with convenient payment solutions that work for your practice and for your clients.

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Invoicing Software and Time and Expense Tracking for Healthcare

FreshBooks ensures you get paid faster for your healthcare services and spend less time on your small business accounting. Create a customized invoice that reflects your branding in minutes. Add a personalized thank-you note and send your invoice directly from your account. FreshBooks offers all the accounting tools you need to easily manage your business finances, from automatic expense tracking that ties to your business bank account and credit card, to simplified time tracking for you and your team.

Get Paid Fast

You work hard for your money, so you deserve to get paid with no delay. Thanks to the innovative invoicing tool from FreshBooks, you can send invoices in just a few clicks. To get the most out of this feature, customize your invoice template with your business’s branding materials.

Once you send your professional invoices, your clients have a few ways to conveniently pay their bills. The two fastest options are via the FreshBooks website and app. This secure online payment platform allows your clients to pay in minutes. If you have recurring customers, they are welcome to create an account and keep a credit card on file. If they choose this option, the card will be charged within moments of receiving the invoice.

Save Time & Money

As a business owner, you know that time is money. By entrusting FreshBooks with your accounting, you can save both time and money. FreshBooks allows you to put major tasks on your bookkeeping to-do list – like invoicing, creating expense reports and generating business insight reports – in cruise control.

FreshBooks is also more affordable than a traditional accountant. The accounting software for distribution packages starts as low as $15 a month. It’ll make you wonder why you ever considered hiring an accountant.

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Appointment Scheduling

Schedule patient appointments with a few simple clicks and zero frustration using the Acuity Scheduling integration for FreshBooks. View your daily appointment schedule at a glance to plan your day. Automate bookings, cancellations, appointment reminders and payments, for a pain-free healthcare scheduling system.

Recurring Invoices

Invoicing isn’t your most important job task, but it’s crucial for keeping your healthcare practice’s finances in order. Luckily, FreshBooks accounting software makes the process quicker and easier with recurring invoicing. Send recurring bills to the patients you see regularly. You can create a recurring profile in a few clicks and FreshBooks will automatically send the invoices for you, freeing up time for more pressing tasks.

Late Payment Reminders

Never let a missed payment slip away. With FreshBooks, you can automatically send late payment reminders to patients for overdue bills. Create custom messaging, set a schedule and forget about it. Your clients receive polite late payment reminders and you don’t have to lift a finger. FreshBooks makes it easier to collect every dollar owed to your practice.


Make the billing process as simple as possible for your practice and for your patients. FreshBooks accounting software allows you to set up billing schedules so your clients can pay automatically and securely by credit card for every appointment, without having to think about it. Your patients save time and your practice gets the financial security of knowing exactly when payments come in. It’s a win-win.

Choosing an Accounting Software for Your Healthcare Business

You need accounting software for your healthcare business that simplifies the bookkeeping process. That way, you can spend more time addressing the health needs of your patients and less time tied down to a desk. FreshBooks offers best-in-class accounting tools designed with your small business in mind, so you can ditch the complicated calculations and time-consuming spreadsheets. Its suite of products works together to offer a streamlined accounting solution that keeps your finances in order, even when you’re busy tending to your patients.

Award-Winning Customer Support

  • Help From Start to Finish: Our Support team is highly knowledgable and never transfers you to another department.
  • 4.8/5.0 Star Reviews: Yup, that’s our Support team approval rating across 120,000+ reviews
  • Global Support: We’ve got over 100 Support staff working across North America and Europe
Award-Winning Customer Support

Accounting App for Healthcare that Offers Secure Online Payments

FreshBooks makes it easier than ever for you to get paid with simple, secure online payments. Clients can pay you by credit card straight from an invoice with just a couple of quick clicks. With high-level encryption and first-class security, your patients don’t have to worry about payment protection. FreshBooks offers a transparent, affordable fee structure to remove the guesswork from online payments for healthcare practices. Billing isn’t the best part of running a busy clinic. Let FreshBooks online payments look after it for you.

FreshBooks Integrates with All Your
Favorite Apps

You can now customize your FreshBooks experience with a range of business-friendly apps. Take control of your healthcare business accounting with the help of these integrations.

See all Integrations

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Accounting Software for Healthcare Organizations

FreshBooks accounting management software is built with the many needs of healthcare organizations in mind. Provide detailed invoices for your patients so they can easily submit accurate insurance claims for quick reimbursement. With automatic expense tracking and recurring invoices, you can spend more time in the clinic helping patients and less time bogged down in paperwork. Get back to the healthcare work you’re passionate about and let FreshBooks keep your finances on track.

Advance Your Business with Double-Entry Accounting on FreshBooks

You’re in the business of physical health, but what about your own financial health? Do you know where your healthcare business stands?

At FreshBooks, we’re obsessed with giving healthcare business owners exactly what they need in order to take control of their accounting and bookkeeping. That’s why our accounting software now includes double-entry accounting – an industry standard feature that helps you keep all of your debits and credits in check.

Always know whether your healthcare business is “in the black”.

The eight new double-entry accounting features include:

  • Cost of Goods Sold
  • General Ledger
  • Trial Balance
  • Chart of Accounts
  • Accountant
  • Access
  • Bank Reconciliation
  • Bank Sheet
  • And Other Income

Know that your bookkeeping is up-to-date with FreshBooks accounting software. Start your 30-day, risk-free trial.

What Is the Best Accounting App for Healthcare?

Running a busy healthcare practice means you need to be able to do important work from anywhere. The FreshBooks mobile app lets you work on your business finances on the go, whether you’re scheduling patient appointments from the bus or running expense reports while out of town for a conference. FreshBooks stays in sync across all your devices, so you always have access to the latest financial data. Upload receipts and respond to patients directly through the app, from wherever your work takes you.

Accounting Software for Healthcare Free Download

Get started using simple cloud-based accounting software for the healthcare industry with a free 30-day trial. FreshBooks lets you test out its easy-to-use features for a full 30 days before committing — no strings attached and no fine print. You don’t even need a credit card number to get started. Sign up for your free trial today to start growing your healthcare practice and managing your finances the easy way.


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