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Paychex Flex vs APS Payroll

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Our analysts compared Paychex Flex vs APS Payroll based on data from our 400+ point analysis of Payroll Software, user reviews and our own crowdsourced data from our free software selection platform.

Overview Pricing Benefits & Features Analyst Ratings Comparison Charts User Ratings Analyst Summary Screenshots
Paychex Flex Software Tool
APS Payroll Software Tool
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Product Basics

Analyst Rating

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Detailed Analysis

User Sentiment

Great User Sentiment (2205 Reviews)

Analyst Rating

78 Detailed Analysis

User Sentiment

Excellent User Sentiment (1249 Reviews)
Paychex Flex is a cloud-based compensation and HR solution with the capability to serve thousands of employees. While there is an essential core version that mainly handles financials, it runs a wide range of departments and tasks. Some of its functions include payment management, benefits, talent management, time clocks, attendance, workforce management and more.


It’s a scalable option with unique versions for small, medium and large businesses with different versions for groups of varying sizes, including one to nine, 10 to 49, and 50 to thousands. It also has distinct user roles for workers, managers or administrators. A winner of multiple industry awards, its automation cuts down on time doing manual operations like processing payments, auto calculating taxes and staying up to date with current rates and compliance.
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Designed to meet the needs of small and medium-sized businesses, APS Payroll is a cloud-based solution for managing human resources. It provides features to help automate and streamline a variety of core HR tasks including processing payroll, tracking time and attendance, hiring the best talent, managing employee benefits, and creating analytic reports based on user data.

Users can access their account from any internet-connected device to conveniently complete tasks. Built with scalability in mind, it’s able to grow with businesses. Additionally, each organization has access to a dedicated support team and account lead that can assist with tech support and field general assistance inquiries.
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$39 Monthly
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$250 Monthly
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Product Insights

  • Better Organization: Centralize important files and payroll data in one centralized location, making it easier to access. Assign user roles through administration; organizations control the dissemination of sensitive data.
  • Greater Accuracy: Run auto calculations for taxes and direct deposit and sync the general ledger making it easy to plug the information into an integrated accounting program. Creates a streamlined, easy way to manage all of the relevant data.
  • Increased Efficiency: Save time and work by decreasing the amount of manually input data. Record attendance within the application, making payment more straightforward. Auto-calculate local, state and federal taxes saving tons of manpower and time.
  • Better Scalability: Grow the platform as the company experiences exponential growth. Go from workplaces with as few as two employees to workforces that number in the thousands. Each level comes with more functionality and increased administrative and HR control over the processes.
  • More Open Communication: Use notifications, mass emails and electronic bulletin boards to promote an easy flow of information. Communicate enrollment reminders, announcements or company news seamlessly. Ensure employees, managers, executives, contractors, remote workers and other employees are all on the same page.
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  • Multiple Pay Options: Direct deposit and pay card options available. Partners with major banks, including US Bank, which offers a pay card and allows employees to use a bank card without an account. 
  • Training: Offers recurring and one-time training courses for individuals and groups. Managers receive notifications when users enroll and complete courses to help ensure that all employees are up to date on all training. 
  • Information Filtering: Offers employee search through filters by sorting according to employee name, number, social security number or description. 
  • Consistent Branding: Branded career pages guarantee consistent branding messages to clearly convey company values to potential new employees. Post on popular job boards including LinkedIn, Indeed and Glassdoor. 
  • Interactive Employee Performance Management: Allows managers to set goals for employees and measure them against specific job-related competencies. Employees can access information, complete self-assessments and electronically sign off on reviews. 
  • Easy-to-Use Templates: Prebuilt templates and customizable reporting options help build schedules and provide insight into the workforce. Create electronic versions of any existing forms for easy record-keeping using a PDF builder. 
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  • Online Payroll: Handle payroll management. Automatically calculate taxes, payments and files. View critical data, including the cash required for upcoming paydays. Use safeguards such as notifications to prevent errors. Employees can access direct deposit and pay stub information directly. Last, administrators can access documentation and records like cash requirements, the payroll journal and tax deposit notices.
  • Tax Administration: Calculate taxes, add hours to each pay period, file returns and set up direct deposit.
  • Mobile: Access information on W-2s, direct deposit and other important information. For organizations that want to use the solution’s attendance functionality, workers can easily punch in and out on the app. Run it on smartphones and tablets with iOS or Android. It requires iOS 12.0 or higher and an Android OS of 7.0 or higher to run.
  • Reporting: Comes with over 160 dashboards and reports. Access reporting for payroll journals, department summaries, notices of tax deposits and cash requirements. For businesses looking for more robust options, look into the workforce management options.
  • Multiple Versions: Choose from a variety of purchase options to select the option that best meets business needs. The packages include:
    • Small Business Payroll: Use for businesses with under 50 workers. Use payment processing and access to the mobile app. Calculate state, federal and local taxes. Finish onboarding, complete forms, edit personal info and see compensation data. Provide direct deposit, pay cards and paper check for payment options. For businesses with multiple worker types, offer payment hourly, by salary or by contract. Provide help with labor compliance, garnishment payments, new hire reporting and over 160 reports for analytics.
    • Mid-Sized Business Payroll: Use for businesses with 10 to 49 employees. Handle applicant tracking, attendance, recruiting, onboarding, hiring, health benefits, retirement, health insurance and other similar administrative tasks. Expand the platform HR capabilities by including HR record management, an events calendar and reporting and analytics for the department.
    • Enterprise Payroll Management: Use for 50 to over 1,000 workers. Provide more robust HR abilities in addition to compensation management. Works for hiring, recruiting, training, compliance, handling offboarding, applicant tracking, time and attendance, health benefits, HR record management, an events calendar, retirement and expanded HR analytics.
  • Benefits: Complete the benefits management process. Run enrollment and analyze data. Manage group health insurance, retirement, section 125 plans, FSAs, POPs, retirement and more. Update information in real time and change benefit data easily. Give employers more control over invoices, benefit costs and bill reconciliations. Work with financial advisers and educate staff about the retirement plan offerings.
  • Compliance: Keep up with new tax laws and determine the status of essential laws like the Affordable Care Act.
  • Workplace Analytics: Analyze data and create a staff and workforce strategy. Create reports for analytics, HR, payroll and benefits. Generate customized reports for more detail. Provide accountants, financial advisors or bookkeepers with the access they need. Access the quick answers function, giving info on total earnings, net pay, tax liability and hours without pulling a full report. View live reporting to see information as it happens. Export information in various file types, including CSV, fixed-width, PDF and XLS. Send data to third-party software where users can add fields, adjust formatting or even build graphs.
  • Time and Attendance: Provide several options for tracking time and clocking in and out. It integrates with other solutions to track labor costs.
    • Time Kiosk: Allow employers to turn a tablet into a time clock where employees can punch in and out, do job transfer and register lunches and breaks.
    • TrueShift: Offer a time clock that has automated tracking and reporting, making it easy to import to payroll. Use biometric technology to prevent buddy punching. Track up to 500 workers per clock and connect to up to 32 other clocks. Punch in via web or mobile and use a backup camera to verify punches and keep compliant. It can track overtime pay and other wage requirements. Print and email timecard reports and clock in or out with a fingerprint, proximity badge, web punch or PIN entry.
    • InVision Iris Recognition Time Clock: Use iris recognition to ensure employees are working. Integrate with the rest of the HR and time and attendance. Prevent rework and cut down on errors. It works with contacts, goggles, glasses and face masks up to 15 inches away. Track up to 50,000 workers. Unlike a retinal scanner, it doesn’t store images. Instead, encrypt templates to guarantee privacy.
  • Online Learning: Use the built-in learning system. Provide eight free courses to users and customize/build current training, classes, quizzes and videos. Promote skill acquisition, up-skilling and career development. Run classes for on and offsite students. Use the calendar to schedule an in-person training, track transcripts and create content. Access the additional content libraries for purchase and provide surveys so employers can get feedback. Subjects include business, HR compliance, leadership, management, sales, software and workplace safety.
  • Payment Options: Gives options for paying employees, including same-day ACH capability, direct deposit, paper checks and pay cards.
  • Accounting: Manage payment and HR data with the accounting-specific dashboard. Access a library of resources, including tax forms and CPE courses. Import files through the general ledger service and post payroll data through the enterprise solution. Integrate with Sage Intacct, QuickBooks and Xero. Upload or download many files for one or multiple companies from one location.
  • Workers Compensation: Handle workers’ compensation covering medical expenses and lost wages while still ensuring stable cash flow. Provide insurance plans from A-rated national carriers.
  • Onboarding: Give new employees paperwork to fill out online. Customize the experience with personalized messages, welcome videos or other information about the company culture.
  • Payroll Protection: Let managers extend funds from a bank account for up to seven days without services being interrupted or charges for insufficient funds. Process two same-day ACH requests for a last-minute payroll, correcting pay or adding an employee. Help build business credit, deal with fraud, gain small business loans and more.
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  • Payroll: Simplifies payroll by reducing errors, avoiding penalties, calculating summary audits and providing a dedicated support team. It also assists in: 
    • Analytics: Creates data-driven decisions about important assets and offers better visualization of payroll metrics. It also offers solutions to questions such as overtime trends on payroll, cost of payroll expense and employee compensation trends. 
    • Compliance: Offers guided tax compliance with a defined process for tax management, payroll tax filings and payments. Also assists payroll process and tax compliance in 411 jurisdictions, in all 50 states. 
  • Self-Service: Provides separate portals for employees and system administrators, with different levels of access and dashboard capabilities based on designation. 
  • Benefits Administration: Tracks and manages all benefits plan types, including medical, dental, life insurance and disability plans. Automatically assigns deduction amounts via mass update during open enrollment. 
  • Multiple Carrier Compatibility: Compatible with all types of benefits providers and ensures coverage under any plan. Automatically sends relevant paperwork and ensures compliance with organizational requirements to guarantee coverage. 
  • Integration: Integrates with more than 100 third-party applications to create a more robust suite for businesses with additional needs that aren’t met by the system. Noteworthy integrations include Xero and Sage Intacct. 
  • Schedule Creation: Allows seamless creation of schedules based on a variety of factors including department, break times, length of time and much more. Employees can be added directly to the template and schedules without the need for recreation again in the future. 
  • Reporting: Organizes data metrics and provides insights into workforce efficiency via more than 80 prebuilt reports. Build reports based on factors such as income, employee demographics, custom options or a combination, and specify whether the reports are public or private. 
  • Affordable Care Act (ACA) Reports: Create and file 1094-C and 1095-C forms with a guided interface. The system automatically checks for discrepancies before filing the forms with the IRS. 
  • Time Management: Efficiently records and tracks HR and payroll processes. Calculates labor expenses, minimizes compliance risks and reports time through various channels such as mobile, kiosk, biometric and online. 
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Product Ranking

#6

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#14

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Analyst Rating Summary

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Analyst Ratings for Functional Requirements Customize This Data Customize This Data

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APS Payroll
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User Sentiment Summary

Great User Sentiment 2205 reviews
Excellent User Sentiment 1249 reviews
83%
of users recommend this product

Paychex Flex has a 'great' User Satisfaction Rating of 83% when considering 2205 user reviews from 4 recognized software review sites.

92%
of users recommend this product

APS Payroll has a 'excellent' User Satisfaction Rating of 92% when considering 1249 user reviews from 4 recognized software review sites.

4.5 (24)
5.0 (11)
4.2 (1114)
4.6 (577)
4.1 (976)
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4.6 (610)
3.8 (91)
4.4 (51)

Awards

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APS Payroll stands above the rest by achieving an ‘Excellent’ rating as a User Favorite.

User Favorite Award

Synopsis of User Ratings and Reviews

User-Friendly: Just under 50% of reviews said the user experience was good and the interface worked well.
Good Support: Around 40% had good interactions with customer service and were happy with their level of care.
Proper Functionality: One-third of reviewers felt that the system was fully equipped with the tools they needed and especially liked the efficient payroll processing, benefits management, the transparency employees had on their payments and the PTO features.
Value for Price: Around 20% of reviews felt happy with the price and said it was well worth it.
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Ease of Use: Of users who mentioned the platform’s usability, 85% suggested it’s user-friendly and has an intuitive interface.
Payroll Tracking: The software offers seamless workday tracking and updates irrespective of employee location, according to 84% of reviews on this feature.
Support Team: Customer service is helpful and informative in resolving technical issues, as reviewed by 76% of users mentioning it.
Workflow Automation: Of reviews about workflows, 88% suggested it reduces the need for manual entries by organizing and automating tasks.
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Issues with Features: Just under 40% of reviewers felt the features were lacking. The biggest concerns were that the UI was difficult to learn initially and the reporting wasn’t sophisticated enough.
Time and Attendance Systems: Over 20% of users had problems with the punching system or the biometric clocks.
Poor Customer Service: While users felt that the customer service was helpful overall, they noted a high rate of turnover with their reps which often led to gaps in service.
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Not Cost-Effective: The platform is a bit on the pricey side, according to 76% of users who reviewed cost.
Restricted Reporting: The system has limited report usage and exporting, as noted by 60% of users referencing this feature.
Unstable Mobile App: The mobile app’s functionality isn’t user-friendly and creates problems when processing payroll, according to 80% of users who reviewed it.
Limited Customization: Of users who mention customization, 60% stated that some commonly used features such as performance review aren’t customizable.
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Paychex Flex is a solid payroll processing system best liked for its ease of use, positive customer service interactions, fair price and useful functionality. However, it comes with several drawbacks as well. While it’s easy to use, the onboarding takes time and can be initially frustrating. The customer service is good but the high turnover with representatives can be trying. A small but significant percentage had problems with the time and attendance features, either having issues with their punches not being registered or issues with the physical biometric clocks. Overall, it seems best for small and medium businesses looking to automate their payroll. Any organization with multiple types of workers, complex pay rules or many different kinds of income to report should be sure to demo the system carefully and may want to find a more complex option.

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APS Payroll provides easy-to-use HR management tools and exceptional payroll tracking. Other notable features include workflow management to ease manual tasks, intuitive technology and stellar customer support. Users dislike its restricted mobile app functionality, lack of customization and reporting options, however. The system is a good fit for SMBs that are trying to organize and create workflows, as well as looking for core HR functionality in a unified platform.

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Screenshots

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