Overview
ProductRatingMost Used ByProduct SummaryStarting Price
Paychex Flex
Score 6.6 out of 10
N/A
Paychex Flex, of Paychex' Online Payroll Services, is a cloud-based human resource management and payroll platform. Paychex offers core and specialized services, and scales to meet the needs of small businesses, SMBs, and large enterprises.
$59
per month/+$4 per employee
QuickBooks Online Advanced
Score 7.8 out of 10
N/A
QuickBooks Online Advanced is a SaaS-based accounting software designed to scale with growing businesses. It includes the functionalities of QuickBooks Online, as well as more robust business analytics, customization, and resource management.N/A
Pricing
Paychex FlexQuickBooks Online Advanced
Editions & Modules
Paychex Go
$59
per month/+$4 per employee
Paychex Flex Service
Contact sales team
Paychex Flex Enterprise
Contact sales team
No answers on this topic
Offerings
Pricing Offerings
Paychex FlexQuickBooks Online Advanced
Free Trial
NoYes
Free/Freemium Version
NoNo
Premium Consulting/Integration Services
NoNo
Entry-level Setup FeeRequiredNo setup fee
Additional Details
More Pricing Information
Community Pulse
Paychex FlexQuickBooks Online Advanced
Considered Both Products
Paychex Flex
Chose Paychex Flex
Paychex more attentive to call backs for issues
Chose Paychex Flex
I think Paychex Flex is slightly better than ADP. Paychex Flex and ADP create the same needed reports and have a lot of the same functions; however, Paychex Flex is more visually pleasing. Paychex Flex uses a tile format and is easy to get into different categories such as …
QuickBooks Online Advanced
Chose QuickBooks Online Advanced
I have used it in other places I've worked with Microsoft Dynamics GP, but I know this is a more complicated one, and unlike QuickBooks, it manages each module (AR, AP, Finance, Purchasing) separately, like the connection between modules is not as easy as it is in QuickBooks …
Top Pros
Top Cons
Features
Paychex FlexQuickBooks Online Advanced
Human Resource Management
Comparison of Human Resource Management features of Product A and Product B
Paychex Flex
6.7
247 Ratings
16% below category average
QuickBooks Online Advanced
-
Ratings
Employee demographic data8.0197 Ratings00 Ratings
Employment history8.1220 Ratings00 Ratings
Job profiles and administration6.8155 Ratings00 Ratings
Workflow for transfers, promotions, pay raises, etc.7.3154 Ratings00 Ratings
Organizational charting1.01 Ratings00 Ratings
Organization and location management7.9138 Ratings00 Ratings
Compliance data (COBRA, OSHA, etc.)7.5132 Ratings00 Ratings
Payroll Management
Comparison of Payroll Management features of Product A and Product B
Paychex Flex
8.5
288 Ratings
6% above category average
QuickBooks Online Advanced
-
Ratings
Pay calculation9.0271 Ratings00 Ratings
Off-cycle/On-Demand payment9.1136 Ratings00 Ratings
Benefit plan administration7.2156 Ratings00 Ratings
Direct deposit files9.2270 Ratings00 Ratings
Salary revision and increment management8.5193 Ratings00 Ratings
Reimbursement management7.9105 Ratings00 Ratings
Leave and Attendance Management
Comparison of Leave and Attendance Management features of Product A and Product B
Paychex Flex
7.0
144 Ratings
14% below category average
QuickBooks Online Advanced
-
Ratings
Approval workflow6.3102 Ratings00 Ratings
Balance details7.5136 Ratings00 Ratings
Annual carry-forward and encashment7.3110 Ratings00 Ratings
Employee Self Service
Comparison of Employee Self Service features of Product A and Product B
Paychex Flex
8.5
249 Ratings
5% above category average
QuickBooks Online Advanced
-
Ratings
View and generate pay and benefit information8.6228 Ratings00 Ratings
Update personal information9.0239 Ratings00 Ratings
View company policy documentation7.7111 Ratings00 Ratings
View job history8.7168 Ratings00 Ratings
Asset Management
Comparison of Asset Management features of Product A and Product B
Paychex Flex
7.8
40 Ratings
1% above category average
QuickBooks Online Advanced
-
Ratings
Tracking of all physical assets7.840 Ratings00 Ratings
HR Reporting
Comparison of HR Reporting features of Product A and Product B
Paychex Flex
6.1
164 Ratings
22% below category average
QuickBooks Online Advanced
-
Ratings
Report builder5.7134 Ratings00 Ratings
Pre-built reports6.8154 Ratings00 Ratings
Ability to combine HR data with external data5.683 Ratings00 Ratings
Onboarding
Comparison of Onboarding features of Product A and Product B
Paychex Flex
8.0
158 Ratings
0% below category average
QuickBooks Online Advanced
-
Ratings
New hire portal8.0151 Ratings00 Ratings
Manager tracking tools7.9100 Ratings00 Ratings
Recruiting / ATS
Comparison of Recruiting / ATS features of Product A and Product B
Paychex Flex
8.5
59 Ratings
9% above category average
QuickBooks Online Advanced
-
Ratings
Job Requisition Management9.732 Ratings00 Ratings
Company Website Posting9.730 Ratings00 Ratings
Publish to Social Media6.823 Ratings00 Ratings
Job Search Site Posting6.730 Ratings00 Ratings
Duplicate Candidate Prevention6.828 Ratings00 Ratings
Applicant Tracking9.633 Ratings00 Ratings
Notifications and Alerts9.853 Ratings00 Ratings
Customization
Comparison of Customization features of Product A and Product B
Paychex Flex
-
Ratings
QuickBooks Online Advanced
8.5
90 Ratings
19% above category average
API for custom integration00 Ratings8.773 Ratings
Plug-ins00 Ratings8.478 Ratings
Security
Comparison of Security features of Product A and Product B
Paychex Flex
-
Ratings
QuickBooks Online Advanced
8.2
160 Ratings
3% above category average
Single sign-on capability00 Ratings8.2143 Ratings
Role-based user permissions00 Ratings8.2156 Ratings
Reporting & Analytics
Comparison of Reporting & Analytics features of Product A and Product B
Paychex Flex
-
Ratings
QuickBooks Online Advanced
8.6
173 Ratings
13% above category average
Dashboards00 Ratings8.8163 Ratings
Standard reports00 Ratings8.8172 Ratings
Custom reports00 Ratings8.1164 Ratings
General Ledger and Configurable Accounting
Comparison of General Ledger and Configurable Accounting features of Product A and Product B
Paychex Flex
-
Ratings
QuickBooks Online Advanced
8.1
175 Ratings
9% above category average
Accounts payable00 Ratings8.7169 Ratings
Accounts receivable00 Ratings8.9164 Ratings
Cash management00 Ratings8.0145 Ratings
Bank reconciliation00 Ratings8.2167 Ratings
Expense management00 Ratings8.5154 Ratings
Time tracking00 Ratings8.088 Ratings
Multi-currency support00 Ratings7.444 Ratings
Multi-division support00 Ratings8.374 Ratings
Regulations compliance00 Ratings7.977 Ratings
Electronic tax filing00 Ratings9.097 Ratings
Self-service portal00 Ratings8.692 Ratings
Primary and Secondary Ledgers00 Ratings8.673 Ratings
Intercompany Accounting00 Ratings6.874 Ratings
Journals and Reconciliations00 Ratings8.4151 Ratings
Enterprise Accounting00 Ratings6.863 Ratings
Configurable Accounting00 Ratings8.581 Ratings
Centralized Rules Framework00 Ratings6.961 Ratings
Standardized Processes00 Ratings7.7115 Ratings
Inventory Management
Comparison of Inventory Management features of Product A and Product B
Paychex Flex
-
Ratings
QuickBooks Online Advanced
8.1
70 Ratings
14% above category average
Inventory tracking00 Ratings8.170 Ratings
Order Management
Comparison of Order Management features of Product A and Product B
Paychex Flex
-
Ratings
QuickBooks Online Advanced
8.8
118 Ratings
17% above category average
Pricing00 Ratings8.786 Ratings
Order entry00 Ratings8.879 Ratings
Credit card processing00 Ratings9.0103 Ratings
Best Alternatives
Paychex FlexQuickBooks Online Advanced
Small Businesses
Patriot Software
Patriot Software
Score 9.0 out of 10
QuickBooks Self-Employed
QuickBooks Self-Employed
Score 9.1 out of 10
Medium-sized Companies
Paypro Workforce Management
Paypro Workforce Management
Score 9.5 out of 10
Accounting Seed
Accounting Seed
Score 8.3 out of 10
Enterprises
Infor Human Resources
Infor Human Resources
Score 7.3 out of 10
Oracle Fusion Cloud ERP
Oracle Fusion Cloud ERP
Score 8.1 out of 10
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User Ratings
Paychex FlexQuickBooks Online Advanced
Likelihood to Recommend
7.7
(298 ratings)
8.9
(175 ratings)
Likelihood to Renew
8.9
(42 ratings)
9.5
(6 ratings)
Usability
8.0
(240 ratings)
9.5
(4 ratings)
Availability
9.3
(10 ratings)
-
(0 ratings)
Performance
9.1
(10 ratings)
-
(0 ratings)
Support Rating
7.7
(245 ratings)
-
(0 ratings)
In-Person Training
4.5
(1 ratings)
-
(0 ratings)
Online Training
7.0
(4 ratings)
9.1
(1 ratings)
Implementation Rating
9.4
(11 ratings)
6.5
(3 ratings)
Configurability
7.6
(8 ratings)
9.1
(1 ratings)
Ease of integration
9.1
(3 ratings)
-
(0 ratings)
Product Scalability
9.3
(10 ratings)
-
(0 ratings)
Vendor post-sale
8.9
(31 ratings)
-
(0 ratings)
Vendor pre-sale
9.2
(32 ratings)
-
(0 ratings)
User Testimonials
Paychex FlexQuickBooks Online Advanced
Likelihood to Recommend
Paychex, Inc.
In my experience, Paychex Flex is well suited for small to medium sized businesses. It has been helpful in streamlining the onboarding process and it is easy to update and maintain employee profiles and records. It has worked will in a non-profit environment where there is clergy pay and housing, which can get quite complicated. I cannot think of a scenario where it would be less appropriate.
Read full review
Intuit
I gave this rating more from the standpoint that I enjoy using other bookkeeping platforms more than I enjoy QuickBooks Online Advanced. While QuickBooks Online Advanced is a solid platform that I have no issue working in, there are some areas that could be improved. The biggest of these areas is the overall design of the platform. I feel that when you first log in and are brought to the home screen, everything just looks cluttered.
Read full review
Pros
Paychex, Inc.
  • I like I can enter payroll and if I need to leave the program, I can resume at a later time and my information is saved.
  • I like the analytics & reports features.
  • I like how all my employees have easy access to their portal.
Read full review
Intuit
  • It allows us to link to bank accounts in order to get up-to-date, real-time information, which is so important in today's lightning speed work world.
  • The "canned" reports are excellent and allow for extreme customization also. This makes them very helpful to both me and my clients.
  • The user interface for QuickBooks Online Advanced is easy to navigate and is intuitive for novices. The screens are well laid out and have cohesiveness on each screen to match tasks with others that match up well.
Read full review
Cons
Paychex, Inc.
  • Reporting writing is difficult to figure out
  • Employee turnover inside Paychex was a problem, until we were assigned to Neil Williams - since that time it has settled down
  • Pressure to convert personal connection with payroll advisor to using automated service
Read full review
Intuit
  • Proper advice in QuickBooks Online Pro for the usage if QuickBooks Online Advanced will be more efficient.
  • More features and space in the app for organization of the self-created workflows.
  • The stability of QuickBooks Online Advanced can still be better.
  • There are still file-size issues and limitations on transactions and attributes of transactions.
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Likelihood to Renew
Paychex, Inc.
Overall I like the features that Paychex Flex offers. I am sure that there are other features that I am unaware of, so I am excited to see if there is more that Flex is capable of to make my job easier. The basic features are really user friendly and easy to access. If there ever is an issue customer service is great
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Intuit
QuickBooks Online Advanced is not like any other accounting software. With how great the software is now, I would definitely renew QuickBooks Online Advanced
Read full review
Usability
Paychex, Inc.
Some things could be streamlined. For example, we could do custom options for the "add items" tab which has so many options that we never use. "Medical Pay" could be something that the system remembers for the applicable employees. Salaried employees' salaries should definitely be auto-filled. Overall the system works well but I think it could be improved to be easier to use and read.
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Intuit
QuickBooks Online Advanced is great and effective. I use it for almost three months and it definitely does their job
Read full review
Reliability and Availability
Paychex, Inc.
We have not experienced any difficulties with unplanned outages. Notifications are always made for outages, and they do not effect normal business operations.
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Intuit
No answers on this topic
Performance
Paychex, Inc.
Unless there is lag time within the internet, the Paychex Flex website loads exceptional fast, pages load quickly and reports that I need to print or download load quickly. If I need to create a specialized report, once I complete it I receive an e-mail telling me my report is ready to be downloaded. Changing between web pages is fast as well.
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Intuit
No answers on this topic
Support Rating
Paychex, Inc.
Our dedicated representative is one of the main reasons we are sticking with Paychex Flex. If it were not for this person, other platforms could provide the same/similar functionality. It is the ability to speak with someone that understands our business and is willing to get questions answered in a timely fashion that keeps us with Paychex Flex.
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Intuit
No answers on this topic
In-Person Training
Paychex, Inc.
We did online training only
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Intuit
No answers on this topic
Online Training
Paychex, Inc.
It was easy to understand and follow along. I do like the informational videos that we can utilize before we opt to call in for customer service support. It has made a difference since sometimes that resolves the issue I may have had and saved myself a phone call to Paychex support.
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Intuit
The online training was easy to follow and understand. The online training gave us the specific instructions to follow
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Implementation Rating
Paychex, Inc.
Implementation was very smooth. The most cumbersome task was entering the current employees into the system during initial set up, but Paychex staff handled most of that and verified against prior system reports as well as internal reports provided to ensure 100% accuracy.
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Intuit
Need to make an option for non-profit organizations
Read full review
Alternatives Considered
Paychex, Inc.
We still use QB Desktop Pro to maintain a Check Register / Overall Balance for the company, but once having tried QB Payroll Online for about 3 months prior to finding Paychex Flex I can tell you that there's just no comparison. QB online is VERY EXPENSIVE and not so user-friendly. I hated every minute of those 6 payrolls we ran through QB online.
Read full review
Intuit
I have not evaluated any yet. I have used QuickBooks since 2008 and I used Sage in the corporate environment before using QuickBooks. Honestly, I can't remember it because it was early 2000's. I thought about evaluating and looking because of the issues I've had with QuickBooks, but I haven't really investigated.
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Scalability
Paychex, Inc.
Employees can log in at home and get up to date information on their FSA balance and any medical bill reimbursements they may have uploaded. At renewal time they have the ability to make changes to their FSA or for new employees star the enrollment.
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Intuit
No answers on this topic
Return on Investment
Paychex, Inc.
  • I do not believe we have saved anything additionally. The time we've had to spend to get things to hopefully work is sad. This is the reason we've had to turn off all extra "products" of Paychex Flex. Time and Attendance is horrible. Benefits management is horrible. The user experience is horrible.
  • One thing I do not understand is why are updates for states, cities, counties, school districts, etc. not automatically updated? Should we not get a big red flag if we have an employee living/working, being paid in CA, but they aren't set up for CA sick time? If it is required to be on the paycheck stub to show the balance of the sick time, why would we not be notified that we are out of compliance?
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Intuit
  • Positive - time and accuracy: Improved bank feeds with rules for automating categorization (expense account) of transactions.
  • Negative - time and efficiency: Very slow response in data entry such as estimates, purchase orders, invoices, sales receipts, bills & bill payment, and even check writing.
  • Negative - time and error correction: Payroll taxes and sales taxes remain in their own silos and are very difficult to correct OR wrong to correct with regular ledger and transaction entries.
  • Negative - time and reporting: Customer activity cannot be tracked using deposits or JE'd transactions. Reporting and research require the use of transaction forms such as invoices, sales receipts, payments, and credit memos. As an example, the transaction register for a customer can be sorted by various parameters. A default is "All" transactions but does not include all transactions -- you have to select "All plus deposits" and you will also not see checks. This is about the same for Vendor activity, where deposits (e.g. refunds) will not show in the vendor's activity register. A vendor credit memo is required, then the refund can be pushed against that credit balance. The credit memo will appear in the vendor register, but a deposit will not.
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ScreenShots

Paychex Flex Screenshots

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