Best Healthcare Accounting Software: TallyPrime, Xero, FreshBooks, Vyapar, and myBillBook are great for clinics, pharmacies, and laboratories, while AdvancedMD and Cliniko bring more end-to-end features for larger healthcare setups.
The global healthcare market will reach about USD 67.54 billion in 2025. This 14% growth from the previous year clearly tells how the healthcare industry is booming. As it will grow up to USD 111.65 billion till 2029, the responsibility of handling every task increases, be it patient management, diagnosis accuracy, or accounting operations. In healthcare, patient care and operational efficiency both are equally important.
Let’s come to accounting. A small mistake in accounting can delay reimbursements or even affect your cash flow. This is why many clinics, hospitals, and medical practitioners are now switching to healthcare accounting software to automate billing and track expenses.
Thus, we have listed 8 healthcare accounting Software that can help you save time and keep up with accuracy.
Find the best software for your healthcare business with this quick comparison.
| Software | Best For | Key Strength | Pricing |
|---|---|---|---|
| TallyPrime | Clinics, labs, pharmacies, hospitals | GST automation + advanced billing | INR 750/month onwards |
| AdvancedMD | Large healthcare setups | Full revenue cycle + claim management | On request |
| Cliniko | Independent practitioners small clinics | Simple invoicing + online payments | USD 45/month onwards |
| AlignBooks | Healthcare facilities needing workflow automation | Billing + payroll + document workflows | On request |
| Xero | Clinics diagnostic centers moving to paperless | Real-time insights + bank reconciliation | USD 29/month onwards |
| FreshBooks | Healthcare professionals needing easy invoicing | Mobile billing + receipt scanning | USD 21/month onwards |
| Vyapar | Indian pharmacies clinics needing GST billing | Online + offline GST accounting | INR 3999/year onwards |
| myBillBook | Clinics, labs medical stores needing fast GST invoicing | WhatsApp/email billing + dashboards | INR 217/month onwards |
Below-mentioned all the healthcare accounting software will ease managing payments, expenses, and financial data.
TallyPrime is a great pick from the list of Medical accounting software in terms of features. Those who want smooth billing and complete GST compliance can go for it. If you have a clinic, lab, pharmacy, or hospital, you can generate accurate invoices, automate tax filing, manage payroll, and track inventory with very little manual intervention.
TallyPrime
Starting Price
₹ 750.00 excl. GST
Key features of Tally Prime
Pros
Cons
Tally Prime Pricing and Plans:
| Plan | Price | GST |
|---|---|---|
| 1 Month | INR 750 | +18% GST |
| 3 Months | INR 2,138 | +18% GST |
| 12 Months | INR 8,100 | +18% GST |
| Lifetime | INR 22,500 | +18% GST |
AdvancedMD is designed for healthcare providers who want end-to-end control over patient billing, insurance claims, and accounting. It helps you reduce claim denials, boost revenue, and automate the entire reimbursement process, from charge capture to A/R follow-ups.
With built-in analytics and a cloud-hosted model, you get a 360-degree financial health view of your practice anytime, anywhere.
AdvancedMD
Starting Price
Price on Request
Key features of AdvancedMD
Pros
Cons
AdvancedMD Pricing and Plans
Pricing is available on request. Contact the Techjockey team for pricing.
Cliniko is perfect for clinics and independent healthcare practitioners who want to simplify invoicing, payments, and financial reporting without getting into complicated accounting systems. It makes it easy for patients to pay online while helping you track revenue, taxes, refunds, and expenses, all from the same dashboard.
Clinion EDC
Starting Price
Price on Request
Key features of Cliniko
Pros
Cons
Cliniko Pricing and Plans:
| Practitioners | Price per Month |
|---|---|
| 1 | USD 45 |
| 2-5 | USD 95 |
| 6-8 | USD 145 |
| 9-12 | USD 195 |
| 13-25 | USD 295 |
| 26-200 | USD 395 |
AlignBooks is a good choice for healthcare facilities that want to automate everyday accounting tasks like billing, invoicing, document management, and workflows. You can customize invoices, automate reminders, attach supporting documents, and manage GST + payroll from a single system.
AlignBooks
Starting Price
₹ 10000.00 excl. GST
Key features of Alignbooks
Pros
Cons
Alignbooks Pricing and Plans:
There are four plans available – Basic, Premium, Ultima, and AlignBooks Plus. You can contact the Techjockey team for pricing.
Xero is ideal for healthcare clinics, diagnostic centers, pharmacies, and small hospitals that want to shift from manual paperwork to a clean, paperless accounting system.
You can automate invoicing, track expenses, and reconcile bank transactions in one place. Xero also gives real-time financial insights to help you understand your cash flow, profitability, and business growth.
Xero Accounting Software
Starting Price
$ 29.00
Key features of Xero
Pros
Cons
Xero Pricing and Plans:
| Plan | Price / Month |
|---|---|
| Starter | USD 29 |
| Standard | USD 50 |
| Premium | USD 75 |
FreshBooks works well for healthcare professionals who want stress-free invoicing and easy expense tracking.
Whether you’re managing patient payments, consultation billing, or reimbursements, FreshBooks lets you create invoices in minutes, scan receipts from your phone, and collaborate with your accountant without back-and-forth emails.
Freshbooks
Starting Price
$ 2.10
Key features of FreshBooks
Pros
Cons
FreshBooks Pricing and Plans:
| Plan | Price / Month |
|---|---|
| Lite | USD 21 |
| Plus | USD 38 |
| Premium | USD 65 |
| Select | Price on request |
Vyapar is a great fit for Indian healthcare businesses like pharmacies, clinics, labs, and distributors that need strong GST billing with complete accounting accuracy. Its double-entry accounting system helps keep your books balanced without manual calculations.
Vyapar Billing Software
Starting Price
₹ 1099.00 excl. GST
Key features of Vyapar
Pros
Cons
Vyapar Pricing and Plans:
| Plan | Price | Billed |
|---|---|---|
| Silver | INR 3999/year | INR 333.25 per month |
| Gold | INR 4299/year | INR 358.25 per month |
myBillBook helps healthcare businesses generate fast, GST-compliant invoices while keeping track of revenue, expenses, and profitability. Whether you run a clinic, pharmacy, lab, or medical supply store, you can customize bills, automate reports, and share invoices through WhatsApp or email, making payment collection faster and more convenient.
myBillBook
Starting Price
₹ 3599.00 excl. GST
Key features of myBillBook
Pros
Cons
myBillBook Pricing and Plans:
| Plan | Price / Month |
|---|---|
| Diamond | INR 217 |
| Platinum | INR 250 |
| Enterprise | INR 417 |
Conclusion
If you’re running a healthcare business, accounting doesn’t have to be complicated anymore. With the right healthcare accounting software, you can automate billing, reduce claim delays, manage GST or taxes, track expenses, and get clear insights into your cash flow, all without depending on manual spreadsheets.
Choose the one that fits your size, budget, and workflow, and spend more time focusing on patient care instead of paperwork.
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