Best Accounting Software for Paychex Flex

Find and compare the best Accounting software for Paychex Flex in 2025

Use the comparison tool below to compare the top Accounting software for Paychex Flex on the market. You can filter results by user reviews, pricing, features, platform, region, support options, integrations, and more.

  • 1
    Xero Reviews
    Top Pick

    Xero

    Xero

    $2.90/month
    4,637 Ratings
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    Xero is powerful online accounting software for small businesses. With Xero's Cloud-based accounting platform, users can manage cash flow, accept payments, track expenses, and more.
  • 2
    Sage Intacct Reviews
    Top Pick
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    Sage Intacct is a premier cloud-based financial management software designed for growing businesses. It offers comprehensive features including core financials, accounts payable and receivable, cash management, and multi-entity consolidations. The software automates key financial processes, enhancing efficiency and accuracy. Sage Intacct provides real-time financial insights through intuitive and customizable dashboards, enabling data-driven decision-making. Seamlessly integrating with various business applications, Sage Intacct ensures a unified view of operations, enhancing data consistency and collaboration across departments. Its robust reporting and analytics tools allow users to generate detailed financial statements, track key performance indicators, and gain deep insights into financial performance. Sage Intacct is scalable, reliable, and trusted by thousands of organizations worldwide. It supports complex organizational structures with multi-entity management, facilitating seamless consolidations and inter-entity transactions. The cloud-based platform ensures continuous innovation, keeping your financial management tools up-to-date. With award-winning customer support, Sage Intacct empowers businesses to streamline
  • 3
    QuickBooks Online Reviews
    Top Pick

    QuickBooks Online

    Intuit

    $9/month (normally $15/month)
    45 Ratings
    QuickBooks Online is the most widely used accounting software in the entire world. QuickBooks Online simplifies accounting. Accounting software for small businesses that is #1 makes it easy to track receipts, income, transactions and more. You can take photos of receipts to link them with expenses. Our agents are available to answer any questions you may have about QuickBooks. Keep your business running smoothly by using the apps that you love. QuickBooks Online is compatible with PCs, Macs, tablets and phones. Click the link to get a 30-day free trial, and 50% off for your first three months. QuickBooks is more than just accounting software. QuickBooks helps you keep track of your income and expenses so that you can prepare for taxes. Customers save an average of $3,534 per year. Need more help? QuickBooks Live helps you to stay organized and ready for tax season. QuickBooks Mobile is a mobile application that helps you run your business anywhere, anytime.
  • 4
    Neo.Tax Reviews

    Neo.Tax

    Neo.Tax

    2% ttl qualifying R&D expenses
    Neo.Tax has automated preparing the R&D Tax Credit for startups and accountants. We have simplified the complex process of applying for Federal and State R&D Tax Credits. Startups can get up to $250k back in under an hour. Our flexible app allows you to prepare your R&D tax credit on your own, be guided by our team, or anything in between. Whichever route you choose, all claims are reviewed by our tax experts so you can file your credit with complete confidence. The R&D Tax Credit is best for startups and small businesses investing in R&D who made less than $5M to no revenue, have been profitable less than 5 years, and had R&D work done by US based employees or contractors. This is the first step towards turning taxes into a modern advantage for accountants and businesses. Neo.Tax is building the easiest and most accurate tax and accounting automation software.
  • 5
    QuickBooks Online Advanced Reviews
    Get the tools and insights you need to streamline your company. All in QuickBooks Online Advanced With customizable, presentation-ready reports, you can get the insights that you need most. Sync your spreadsheets to get more precise business data and custom insights. * You can save time by importing and sending hundreds upon hundreds of expenses and invoices at once. In just a few clicks, you can enter and edit multiple bills or checks. We take security very seriously. We keep your financial information safe with encryption and security safeguards. You can customize how you work with the many seamless app integrations created just for QuickBooks Online Advanced. Advanced can be integrated with premium apps such as Bill.com, HubSpot and Salesforce to make it even more powerful.
  • 6
    Bookkeeper360 Reviews

    Bookkeeper360

    Bookkeeper360

    $19 per month
    You get the best accounting, technology, and advisory solutions. Avoid the cash surprises and headaches caused by messy books and inaccuracies in your financials. We will provide accurate and timely financial insight on your business. Your business was not started to run an accounting department. Our team of CPAs and advisors is equipped with the necessary tools to help you succeed. Our 100% US-based team uses technology to manage your accounting with an individual touch. Bookkeeper360 is trusted and recommended by thousands of small businesses across the country. It has been awarded Xero's Top Partners of the Year twice and has been ranked among the Inc. 5000's Fastest Growing Companies for the past three year. Bookkeeper360 is a pioneer in the industry. It has been published in Forbes and Accounting Today, Business Insider, CPA Practice Advisor and other publications.
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