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Top Rated Medical Accounting Software with Third party integration

Last updated: June 2026

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37 software options

Sage Intacct logo

Best-in-class Cloud ERP for Finance

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HIPAA-compliant healthcare accounting with departmental costing, revenue cycle, multi-location consolidation, EHR integrations, audit trail.

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Accounting Seed logo

Accounting and analytics software built on Salesforce

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Accounting Seed is an accounting application built natively on Salesforce. Its customizable, enabling users to manage their accounting their way. As a full accounting solution, Accounting Seed tracks financial data through the entire business lifecycle.

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Striven logo

Striven is a cloud-based, all-in-one business management ERP

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Striven gives medical practices a connected financial platform covering AP/AR, automated invoicing, bank reconciliation, and reporting, with multi-entity support and role-based permissions to keep sensitive data secure across locations.

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Daxko Operations logo

Membership management software for non-profit organizations

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Complete operations software for member-based nonprofits - integrating programs, billing, and check-ins in one secure system.

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ActivityHD logo

ERP software for accounting and business management

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ActivityHD is a flexible and comprehensive ERP system that offers customizable tools and management for various complex processes. The software assists businesses of all sizes with payroll processing, accounting, business management and more.

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QuickBooks Online Advanced logo

Accounting & business management for small businesses

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QuickBooks Online Advanced is a web-based accounting & business management solution which enables small businesses to track sales, inventory, financial accounts & payroll from a single dashboard

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Versa Cloud ERP logo

Best ERP for Inventory Heavy Businesses

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Versa is Modern all-in-one Cloud ERP created for fast growing inventory heavy manufacturing, distribution, and e-commerce businesses. The solution is easy to afford, quick to implement, easy to learn and use.

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Clear Books logo

Online accounting software for small businesses

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Clear Books Accounting Software is an online accounting system for small businesses. Clear Books has been developed with the aim of guiding the user through day to day accounting and bookkeeping tasks and providing access to client accounts anytime and from anywhere with an Internet connection.

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SAP Business ByDesign logo

Cloud ERP solution for small and medium sized businesses

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SAP Business ByDesign is an integrated business management solution delivered on a subscription basis through the cloud. SAP Business ByDesign can be localized for 130 different countries and for several specific industries, including manufacturing, wholesale distribution, PSA, non-profit, and more.

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AccountsIQ logo

Cloud-based accounting software for medium-sized businesses

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AccountsIQ is cloud-based accounting software that assists businesses in construction, retail, hospitality, and other sectors with cash flow forecasting, budgeting, and financial reporting.

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GipoNext logo

The all-in-one software solution for clinics

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GipoNext is a 100% cloud-native clinic management software to digitize the whole patient journey.

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SapphireOne logo

Enterprise Resource Planning software

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SapphireOne streamlines medical accounting with tailored features for healthcare, ensuring accurate billing, invoicing, and compliance. Real-time data integration enhances efficiency in managing patient accounts and claims. Customisable reports offer insights, while scalability supports growth.

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Scopevisio logo

Simplify your daily business with Scopevisio.

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Scopevisio is the cloud-based business software that automates commercial processes, aligns your company more profitably and thus makes it fit for the digital future.

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Xledger logo

Empower ambition with Xledger.

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Xledger is a true cloud finance management platform, founded in 2000, and trusted by 100,000+ users worldwide. It automates accounting, unifies multi-entity reporting, and delivers real time insights, helping organisations modernise finance and outperform traditional ERPs

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Access Financials logo

Accounting and financial reporting software

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Flexible financial management software that moves with your business.
Access Financials brings together feature-rich accounting software with projects, procurement, sales, and operations into one powerful financial system capable of managing your organisation’s unique needs, today and tomorrow.

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Billed logo

Invoicing & accounting software for small businesses

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Billed is an invoicing and accounting software designed for small businesses to get paid faster. It offers features such as online invoicing, expense tracking, time tracking, recurring invoices, and credit card payments to streamline financial management. Billed also provides project management tools, financial reporting, and the ability to manage multiple businesses from a single platform, empowering small business owners to focus on growth.

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Flexi Software logo

Accounting Solutions That Power Business

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Flexi combines the strength of an accounting platform with flexibility and support to meet unique business needs. The suite of accounting and workflow automation solutions have helped enable brands to simplify and automate accounting for over 30 years.

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CustomBooks logo

Accounting solution for SMBs

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CustomBooks™ is a cloud-based accounting solution, which helps small to midsize businesses manage purchase, sales orders and inventory across multiple channels. Key features include shipment tracking, quote creation, data import, costing, item tagging, billing, and reporting.

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CenterPoint Accounting logo

Accounting Software for Growing Businesses

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Accounting Software for growing businesses. CenterPoint Accounting Software works especially well for those outgrowing basic accounting systems, those requiring flexible financial reporting, and the management of multiple companies.

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Multiview ERP logo

Enterprise resource planning (ERP) solution

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Multiview is a highly-scalable modular ERP software for scaling organizations which require more automation, control and insight into their operations. A fully-integrated suite of financials ranges from core accounting, budgeting and forecasting to materials management and workflow approvals.

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Zoho Books logo

Online accounting software for businesses of all sizes

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Zoho Books is an online accounting software designed to streamline back office operations, automate workflows, and allow secure collaboration with accountants

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Dynamics 365 logo

ERP and CRM applications from Microsoft

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Microsoft Dynamics 365 is a multi-language, multi-currency enterprise resource planning (ERP) software. The solution is designed for midsize and larger companies, and is fully customizable and extensible through its rich development platform and tools.

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SylogistMission ERP logo

Fund accounting solution for non-profit organizations.

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Serenic Navigator for NPO is a cloud-based and on-premise fund accounting solution which helps non-profits manage resources, programs, and finances on a unified platform. It allows users to have complete visibility into the budgets and expenditures required to manage funding sources and programs. The software delivers several functions including donor management, payroll processing, human resources, budget tracking, grant management, encumbrance, and more.

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MIP Accounting logo

Fund accounting for government organizations and nonprofits

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The preferred, industry leading fund accounting solution for nonprofit organizations and government entities.

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Saasu logo

Small business online accounting

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Saasu is an online accounting app for Australian small businesses. Featuring online invoicing, recurring card charges, bankfeeds, single touch payroll, cashflow forecasts, budgets and advanced inventory from $15 per month for 1,000 trans p.a.

Software developers are provided with a flexible API,

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