Best Medical Accounting Software of 2024
The most important thing medical accounting software should do is satisfy HIPAA regulations. Beyond that, look for features for managing invoicing, documents and client communications.
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Sage Intacct
Best for HIPAA-compliant accounting software
Starting at
N/A
Quote-based.
Promotion
N/A
Learn more on Sage's website
Pros
- Automation features streamline financial processes.
- Customizable reports and dashboard enhance business insights.
- Consolidates many functions, like billing, invoicing, cash flow management payroll and HR, within a single product.
Cons
- Quote-based pricing makes it difficult to compare with competitors.
- Not suitable for small businesses that don’t plan to grow.
Striven
Best for overall medical accounting software
Starting at
$35/month
Additional pricing tiers (per month): $70.
Promotion
7-day free trial
on Striven's website
Pros
- Offers industry-specific features for consulting businesses, nonprofits, manufacturing companies, professional services and more.
- Other features include inventory tracking, reporting, invoicing, project management tools and the ability to categorize transactions using classes.
- Tools to ensure tax compliance.
- Customer support available by phone and live chat.
Cons
- Monthly costs could add up quickly if you require multiple users.
- Limited third-party integrations available; no POS or payroll integrations.
- No mobile app.
Cliniko
Best for Medical practice management software with accounting integration
Starting at
$45/month
Additional pricing tiers (per month): $95, $145, $195, $295, $395.
Promotion
30-day free trial
Pros
- Industry-specific tools and features.
- Library of software integrations.
- HIPAA compliant.
- 24/7 online support.
Cons
- Accounting function available through integration only.
NetSuite
Best for Medical accounting software for large, multi-office practices
Starting at
N/A
Quote-based.
Promotion
N/A
Pros
- Can scale to accommodate larger, enterprise businesses.
- Offers an array of other software products, like CRM, HR, supply chain management, global business management and commerce software for larger companies
- Industry-specific software solutions for a wide range of businesses, including nonprofits, advertising and digital marketing, consulting, retail and food and beverage.
Cons
- Pricing is not transparent.
- Setup fee.
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Default Sage Intacct
Best for HIPAA-compliant accounting software
Starting at
N/A
Quote-based.
Promotion
N/A
on Sage's website
Pros
- Automation features streamline financial processes.
- Customizable reports and dashboard enhance business insights.
- Consolidates many functions, like billing, invoicing, cash flow management payroll and HR, within a single product.
Cons
- Quote-based pricing makes it difficult to compare with competitors.
- Not suitable for small businesses that don’t plan to grow.
Sage Intacct’s cloud accounting software is strong on automation features that speed up common accounting tasks, such as accounts payable and accounts receivable, and reduce risk of error. Unlike Striven’s accounting product, Sage Intacct will automatically reconcile your practice’s transactions. Taking that process one step further, Sage’s AI technology will also regularly scan transactions to alert you to anomalies that require extra attention.
Sage is confident enough in its HIPAA compliance processes that it’s open to entering into business associate contracts with eligible health care customers. This agreement essentially holds Sage legally accountable for properly safeguarding your patients’ PHI according to HIPAA regulations.
Pros
- Automation features streamline financial processes.
- Customizable reports and dashboard enhance business insights.
- Consolidates many functions, like billing, invoicing, cash flow management payroll and HR, within a single product.
Cons
- Quote-based pricing makes it difficult to compare with competitors.
- Not suitable for small businesses that don’t plan to grow.
Sage Intacct’s cloud accounting software is strong on automation features that speed up common accounting tasks, such as accounts payable and accounts receivable, and reduce risk of error. Unlike Striven’s accounting product, Sage Intacct will automatically reconcile your practice’s transactions. Taking that process one step further, Sage’s AI technology will also regularly scan transactions to alert you to anomalies that require extra attention.
Sage is confident enough in its HIPAA compliance processes that it’s open to entering into business associate contracts with eligible health care customers. This agreement essentially holds Sage legally accountable for properly safeguarding your patients’ PHI according to HIPAA regulations.
Pros
- Automation features streamline financial processes.
- Customizable reports and dashboard enhance business insights.
- Consolidates many functions, like billing, invoicing, cash flow management payroll and HR, within a single product.
Cons
- Quote-based pricing makes it difficult to compare with competitors.
- Not suitable for small businesses that don’t plan to grow.
Striven
Best for overall medical accounting software
Starting at
$35/month
Additional pricing tiers (per month): $70.
Promotion
7-day free trial
on Striven's website
Pros
- Offers industry-specific features for consulting businesses, nonprofits, manufacturing companies, professional services and more.
- Other features include inventory tracking, reporting, invoicing, project management tools and the ability to categorize transactions using classes.
- Tools to ensure tax compliance.
- Customer support available by phone and live chat.
Cons
- Monthly costs could add up quickly if you require multiple users.
- Limited third-party integrations available; no POS or payroll integrations.
- No mobile app.
Striven offers reliable accounting software within its full medical practice management solution. In giving Striven the best overall category for medical accounting software, we’ve taken into consideration the fact that it’s a complete accounting and practice management solution within a single product, the pricing is transparent and reasonable, and it’s suitable for practices ranging in size from very small to enterprise.
You may note, however, that we’ve given it only a 3.5-star rating. Strictly as accounting software, Striven falls short in a few notable areas: It requires manual reconciliation of transactions while most competitors offer that as an automated capability, and it lacks both direct integrations with outside software as well as a mobile app.
That said, the software is mobile responsive and can be used on a variety of devices. And if you opt for Striven’s medical practice management solution, then you’ll have all the important tools available to you — billing, document management, expense tracking, insurance claims, marketing, patient portal and scheduling — and likely won’t need additional integrations. Striven’s accounting software will deliver on double-entry accounting and audit trails along with the ability to customize both your chart of accounts and your financial dashboard for tracking invoices and transactions.
Pros
- Offers industry-specific features for consulting businesses, nonprofits, manufacturing companies, professional services and more.
- Other features include inventory tracking, reporting, invoicing, project management tools and the ability to categorize transactions using classes.
- Tools to ensure tax compliance.
- Customer support available by phone and live chat.
Cons
- Monthly costs could add up quickly if you require multiple users.
- Limited third-party integrations available; no POS or payroll integrations.
- No mobile app.
Striven offers reliable accounting software within its full medical practice management solution. In giving Striven the best overall category for medical accounting software, we’ve taken into consideration the fact that it’s a complete accounting and practice management solution within a single product, the pricing is transparent and reasonable, and it’s suitable for practices ranging in size from very small to enterprise.
You may note, however, that we’ve given it only a 3.5-star rating. Strictly as accounting software, Striven falls short in a few notable areas: It requires manual reconciliation of transactions while most competitors offer that as an automated capability, and it lacks both direct integrations with outside software as well as a mobile app.
That said, the software is mobile responsive and can be used on a variety of devices. And if you opt for Striven’s medical practice management solution, then you’ll have all the important tools available to you — billing, document management, expense tracking, insurance claims, marketing, patient portal and scheduling — and likely won’t need additional integrations. Striven’s accounting software will deliver on double-entry accounting and audit trails along with the ability to customize both your chart of accounts and your financial dashboard for tracking invoices and transactions.
Pros
- Offers industry-specific features for consulting businesses, nonprofits, manufacturing companies, professional services and more.
- Other features include inventory tracking, reporting, invoicing, project management tools and the ability to categorize transactions using classes.
- Tools to ensure tax compliance.
- Customer support available by phone and live chat.
Cons
- Monthly costs could add up quickly if you require multiple users.
- Limited third-party integrations available; no POS or payroll integrations.
- No mobile app.
Cliniko
Best for Medical practice management software with accounting integration
Starting at
$45/month
Additional pricing tiers (per month): $95, $145, $195, $295, $395.
Promotion
30-day free trial
Pros
- Industry-specific tools and features.
- Library of software integrations.
- HIPAA compliant.
- 24/7 online support.
Cons
- Accounting function available through integration only.
Cliniko is a global practice management software solution with a variety of plan options ranging from a single-clinician practice to a large practice with hundreds of clinicians. In this way, it’s a great solution to grow with your medical practice. Its industry-specific features include customizable health records templates, appointment scheduling, invoicing and online payments as well as reporting. Plus, the company offers free 24/7 chat and email support.
Cliniko does not have a built-in accounting tool, but it does integrate with Xero, one of our top-rated accounting software products. Because it’s an integration, you will pay a monthly subscription fee for both Cliniko’s practice management software as well as Xero’s accounting software. The good news is that Xero comes packed with nearly the same robust set of accounting functions as QuickBooks Online, but Xero offers more affordable plans.
One unique quality that helps Cliniko stand out among other practice management software is its commitment to charitable organizations. The company donates 2% of all its subscriptions to a select group of charities. And if you run a charitable practice, you can subscribe for free to Cliniko’s software.
Pros
- Industry-specific tools and features.
- Library of software integrations.
- HIPAA compliant.
- 24/7 online support.
Cons
- Accounting function available through integration only.
Cliniko is a global practice management software solution with a variety of plan options ranging from a single-clinician practice to a large practice with hundreds of clinicians. In this way, it’s a great solution to grow with your medical practice. Its industry-specific features include customizable health records templates, appointment scheduling, invoicing and online payments as well as reporting. Plus, the company offers free 24/7 chat and email support.
Cliniko does not have a built-in accounting tool, but it does integrate with Xero, one of our top-rated accounting software products. Because it’s an integration, you will pay a monthly subscription fee for both Cliniko’s practice management software as well as Xero’s accounting software. The good news is that Xero comes packed with nearly the same robust set of accounting functions as QuickBooks Online, but Xero offers more affordable plans.
One unique quality that helps Cliniko stand out among other practice management software is its commitment to charitable organizations. The company donates 2% of all its subscriptions to a select group of charities. And if you run a charitable practice, you can subscribe for free to Cliniko’s software.
Pros
- Industry-specific tools and features.
- Library of software integrations.
- HIPAA compliant.
- 24/7 online support.
Cons
- Accounting function available through integration only.
NetSuite
Best for Medical accounting software for large, multi-office practices
Starting at
N/A
Quote-based.
Promotion
N/A
Pros
- Can scale to accommodate larger, enterprise businesses.
- Offers an array of other software products, like CRM, HR, supply chain management, global business management and commerce software for larger companies
- Industry-specific software solutions for a wide range of businesses, including nonprofits, advertising and digital marketing, consulting, retail and food and beverage.
Cons
- Pricing is not transparent.
- Setup fee.
NetSuite’s ERP software includes a complete accounting and financial management tool within its full suite of apps designed to be an end-to-end health care software solution. Relevant features beyond finance and forecasting include customer relationship management (CRM), business data and insights, and compliance and security. It is powerful software designed for large and enterprise-size businesses, and its quote-based pricing is sure to reflect that.
Pros
- Can scale to accommodate larger, enterprise businesses.
- Offers an array of other software products, like CRM, HR, supply chain management, global business management and commerce software for larger companies
- Industry-specific software solutions for a wide range of businesses, including nonprofits, advertising and digital marketing, consulting, retail and food and beverage.
Cons
- Pricing is not transparent.
- Setup fee.
NetSuite’s ERP software includes a complete accounting and financial management tool within its full suite of apps designed to be an end-to-end health care software solution. Relevant features beyond finance and forecasting include customer relationship management (CRM), business data and insights, and compliance and security. It is powerful software designed for large and enterprise-size businesses, and its quote-based pricing is sure to reflect that.
Pros
- Can scale to accommodate larger, enterprise businesses.
- Offers an array of other software products, like CRM, HR, supply chain management, global business management and commerce software for larger companies
- Industry-specific software solutions for a wide range of businesses, including nonprofits, advertising and digital marketing, consulting, retail and food and beverage.
Cons
- Pricing is not transparent.
- Setup fee.
Jump to
How to choose medical accounting software
Can you use QuickBooks for medical practice accounting?
How to choose medical accounting software
When it comes to selecting accounting software for your medical practice, your highest priority will be to ensure the product you choose is HIPAA compliant.
Medical practices deal daily with invoices and insurance claims. Trying to keep your patients’ protected health information (PHI) entirely separate from your accounting software could quickly become a daunting — and risky — task. You will find that many HIPAA-compliant accounting software options are embedded within complete practice management software or enterprise resource planning (ERP) software.
In addition to satisfying HIPAA regulations regarding PHI, your medical accounting software should include strong invoicing and billing features, tools for document management and a portal for client communications.
Can you use QuickBooks for medical practice accounting?
You may notice that QuickBooks Online and many of our other highly rated accounting software picks are absent from this list. While those products are strong on accounting functionality and features, they lack HIPAA compliance, which is crucial for medical practices. Our list of recommended medical accounting software includes only HIPAA-compliant options.
Methodology
NerdWallet independently reviews accounting software products before determining our top picks. We collect the data for our software ratings from products’ public-facing websites and from company representatives. Our editorial team reviews information on a regular basis for consistency and accuracy.
We also periodically update our scoring system to reflect changing industry norms and business needs. For instance, in 2026, we stopped factoring in whether mobile apps work for both Android and iOS smartphones. If an accounting software product has its own mobile app, it’s almost always available for both operating systems.
NerdWallet’s accounting software ratings favor products that are easy to use, reasonably priced, have a robust feature set and can grow with your business. The best accounting software received top marks when evaluated across 10 categories and more than 30 subcategories. Learn more about how we rate small-business accounting software.
These ratings are meant to provide clarity in the decision-making process, but what’s best for your business will depend on its size, growth trajectory and which features you need most. We encourage you to research and compare multiple accounting software products before choosing one.
NerdWallet does not receive compensation for any reviews. Read our editorial guidelines.
