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Top Rated Billing and Invoicing Software with Shopify

Last updated: May 2026

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93 software options

EBizCharge logo

EBizCharge

Accept payments faster in your ERP, CRM & eCommerce platform

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EBizCharge Billing and Invoicing Software allows your customers to process payments online securely and remotely from anywhere.

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Xero logo

Xero

Cloud-based accounting software for small businesses

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Xero is an award-winning online accounting software with billing and invoicing solutions designed for small business owners and accountants, available on any computer or mobile device with an internet connection. Easily manage your cash flow, bills, and invoices all in one place.

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Chargebee logo

Chargebee

Subscription management and recurring billing software

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Chargebee automates the entire billing process of your recurring customers with invoicing, dunning, metered billing, taxation, flexible price plans, and more.

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SumUp logo

SumUp

POS and payments processing software

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SumUp offers card readers and POS systems designed for small businesses across various industries. The platform provides comprehensive payment solutions including portable card readers, self-service kiosks, and invoicing capabilities. SumUp also features financial management tools such as business checking accounts and customer engagement options through gift cards and reward programs, all accessible through a single mobile application.

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Rippling logo

Workforce management across HR, finance, and IT. 

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Rippling Spend: Consolidate your business’s corp cards, bill pay, travel and expense management, into one modern system with built-in approvals, custom policies, and automatic reconciliation.

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Refrens logo

Business operating system sales, accounting, and inventory.

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Refrens is a business operating system that helps you with invoicing, accounting, bookkeeping, sales, inventory, client & vendor management, and other day-to-day business operations.

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HoneyBook logo

Client management for freelancers & SMBs

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Secure and easy digital payments. Use payment schedules and reminders to never miss an a client payment. Give clients a frictionless payment experience. Small businesses have booked over $2 billion in business through HoneyBook. Get paid quickly and on time, every time.

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Fiverr logo

Time tracking, invoicing and payments app for freelancers

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Fiverr Workspace (formerly AND.CO) is a cloud-based solution for freelance and small business workers, designed to streamline the time & expense tracking process with tools such as invoicing, contract creation, time tracking, expense tracking, & more. Fiverr Workspace also provides native mobile app support for Android & iOS.

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RepairDesk logo

Modern repair shop management software for repair shops.

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RepairDesk is an all-in-one repair shop management software which provides repair ticketing, inventory, customer relationship management (CRM), invoicing, payment processing, marketing, reporting, and more. The cloud-based point of sale (POS) platform is perfect for all sorts of repair businesses.

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Zenskar logo

Automation software for subscription & usage-based billing

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Ditch clunky tools and automate billing operations with Zenskar. Configure any usage-based/subscription pricing models with our no-code builder and let Zenskar handle the rest. Seamlessly aggregate usage, generate/send invoices, create journal entries, and sync with ERP/GL in real-time – no coding.

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PayPal logo

Payment processing, fraud protection and risk management

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PayPal provides an end-to-end suite of tools that can integrate with a business's existing systems and service providers. Its network of shoppers and businesses provides AI-driven data insights to help businesses reach new customers and drive results.

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PayJunction logo

Payment processing for mid-large scale businesses

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PayJunction is a payment gateway & merchant service which provides mid to large scale enterprises with the tools to process all payment types in store or online

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Gestionale sul Web logo

Enterprise resource planning and accounting software

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Gestionale sul Web is an enterprise resource planning software that helps businesses of all sizes manage production, billing, orders, suppliers, and sales. Key features include automated supplier orders, order margin analysis, price lists management, payment processing, offers management, and financial flow tracking.

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CommentSold logo

Social commerce & customer engagement solution for retailers

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CommentSold is a cloud-based social commerce solution which assists retailers with customer engagement and referrals. Its key features include catalog management, search engine optimization, predefined templates, data synchronization, channel management, reporting and customizable branding.

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Avaza logo

All-in-one, client-focused project management for teams.

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Access multi-currency expense tracking, budgeting and billing all in one app with Avaza. Available in the cloud, from any device.

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Reckon One logo

All small and medium-sized businesses.

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Easy to use online accounting software for small businesses. Plans start at just $24 per month.

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Bling logo

Business management software that automates processes

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Bling is a management system responsible for automating business routines and processes. The program makes it possible to issue invoices and receipts, control products and organize stock, register customers and suppliers, manage sales and monitor commissions.

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Invu POS logo

Cloud-based POS solution for service businesses.

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Invu POS is a cloud-based point of sale (POS) solution that helps businesses in retail, healthcare, hospitality, and other industries manage sales, marketing, and payment processes. The platform offers various features such as inventory tracking, customer billing, reporting/analytics, mobile access, campaign management, integration capabilities, and more.

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Holded logo

ERP, Accounting, Invoicing & more for freelancers and SMBs.

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It's a cloud-based invoicing software for freelancers, SMBs and accountant offices to control all aspects of their business and optimise their management.

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Digital Manager Guru logo

Marketing automation platform

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Complete platform for online sales: optimized checkout, subscription management, recurring billing, and automated invoice issuance.

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Fortis logo

Embedded payments and invoicing for B2B workflows

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Fortis is a payment processing and invoicing solution that helps businesses receive payments, monitor transactions, capture eSignatures, send payment requests, and more on a centralized platform. It enables team members to create one-time and recurring invoices in compliance with PCI-DSS guidelines.

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Zigaflow logo

Make running & growing your business easier

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Zigaflow simplifies business management, offering automation, customization, and integration. Designed for diverse needs, it enhances efficiency, security, and growth across all operations.

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Synder logo

Reconcile multichannel sales & recognize revenue with ease.

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Synder helps SME and MidSize up sync, record and recognize online sales and subscriptions in QuickBooks, Sage Intacct or Xero. The platform ensures accurate reconciliation across multiple platforms and offers easy invoicing, transaction categorization and instant data analytics.

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Prodmode logo

Fashion production and sales management system

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Prodmode is an enterprise resource planning system designed for fashion brands and wholesalers, offering production, sales, and inventory management capabilities. The platform includes product lifecycle management tools that organize styles, raw materials, production tracking, and purchasing processes. Prodmode integrates with multiple sales channels to facilitate order management, invoicing, and shipment tracking for emerging brands, small to medium businesses, and luxury fashion companies.

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Whautomate logo

WhatsApp automation and customer engagement platform

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Whautomate is a platform that leverages WhatsApp to provide businesses with automation and customer engagement tools, allowing users to streamline workflows, save time, and optimize sales.

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