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Grant Management
January 8, 2026
4 min read

Running Indirect Cost Calculations

Learn how to calculate and post indirect costs (F&A) for your grants using GrantLink.

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Running Indirect Cost Calculations

Indirect costs (also called F&A or overhead) are the shared costs of running your organization that support grant-funded programs. GrantLink automates these calculations and posts journal entries to QuickBooks.

What Are Indirect Costs?

Indirect costs are expenses that benefit multiple programs and can't be directly charged to a single grant:

  • Rent and utilities
  • Administrative salaries
  • Accounting and legal fees
  • Office supplies
  • IT infrastructure

Funders often allow you to recover these costs at an approved rate.

Setting Up Indirect Costs for a Grant

When creating or editing a grant:

  1. Go to grant Details tab
  2. Configure indirect cost settings:
FieldDescriptionExample
IDC RatePercentage to apply15%
IDC BaseWhat costs the rate applies toMTDC, TDC, Salaries
IDC CapMaximum indirect recovery$50,000 or unlimited

Common IDC Bases

Base TypeWhat's Included
MTDC (Modified Total Direct Costs)All direct costs except equipment, subawards over threshold
TDC (Total Direct Costs)All direct costs
Salaries & WagesPersonnel costs only
CustomOrganization-specific rules

Running an IDC Calculation

Step 1: Navigate to Indirect Costs

  1. Go to grant Indirect Costs tab
  2. Click Calculate

Step 2: Select the Period

Choose the date range for the calculation:

  • Monthly (recommended)
  • Quarterly
  • Custom range

Step 3: Review the Calculation

GrantLink shows a detailed breakdown:

CategoryAmountIn Base?
Salaries$50,000✓ Yes
Fringe$15,000✓ Yes
Travel$5,000✓ Yes
Equipment$10,000✗ No (MTDC excludes)
Subaward (first $50K)$25,000✓ Yes
Subaward (over $50K)$15,000✗ No (threshold)
Base Total$95,000
× Rate (15%)$14,250

Step 4: Approve and Post

  1. Review the calculation
  2. Click Approve
  3. Click Post to QuickBooks

GrantLink creates a journal entry:

AccountDebitCreditClass
Indirect Expense$14,250Grant Class
Indirect Cost Recovery$14,250Grant Class

Understanding the IDC Journal Entry

The IDC journal entry does two things:

  1. Attributes overhead to the grant — Shows the grant "cost" including indirect
  2. Records recovery revenue — Credits your indirect cost recovery account

Important: This JE allocates overhead to the grant. It does not automatically create the "Net Assets Released from Restrictions" entry—that's a separate GAAP requirement handled by your accountant.

Account Mapping

Work with your accountant to map accounts:

GrantLink ConceptTypical Account Type
Indirect ExpenseExpense account (program overhead)
Indirect Cost RecoveryRevenue (cost-reimbursable) OR Contra-expense (internal)

Subaward Threshold Tracking

For MTDC calculations, GrantLink automatically tracks subaward thresholds:

  • Federal threshold: First $50,000 per subaward is included in base
  • Amounts over threshold: Excluded from base calculation
  • Per-vendor tracking: Each subrecipient tracked separately

IDC History and Audit Trail

View all IDC calculations for a grant:

  1. Go to grant Indirect Costs tab
  2. See the history of all runs
  3. Click any run to see the full calculation breakdown

Each run records:

  • Date calculated
  • Period covered
  • Base amount
  • Rate applied
  • Indirect amount
  • Posted JE reference

Best Practices

  1. Calculate monthly — Run IDC at month-end for accurate financials
  2. Review before posting — Verify the calculation looks correct
  3. Coordinate with claims — Ensure IDC is included when submitting reimbursement requests
  4. Avoid double-counting — If claiming IDC on invoices, don't also post IDC JEs that credit revenue

Troubleshooting

IDC Amount Seems Wrong

  • Verify the IDC base type is correct
  • Check that expenses are allocated to the grant
  • Review subaward threshold calculations

Cap Reached

  • GrantLink automatically limits IDC to the cap
  • Review if budget modification is needed
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Related Topics

indirect-costsidcoverheadfajournal-entriesmtdc
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On this page

  • What Are Indirect Costs?
  • Setting Up Indirect Costs for a Grant
  • Common IDC Bases
  • Running an IDC Calculation
  • Step 1: Navigate to Indirect Costs
  • Step 2: Select the Period
  • Step 3: Review the Calculation
  • Step 4: Approve and Post
  • Understanding the IDC Journal Entry
  • Account Mapping
  • Subaward Threshold Tracking
  • IDC History and Audit Trail
  • Best Practices
  • Troubleshooting
  • IDC Amount Seems Wrong
  • Cap Reached

Continue Reading

Creating and Managing Grants

Learn how to create grants, set up budgets, and manage the grant lifecycle in GrantLink.

Working with Funders

Learn how to manage funders, track relationships, and organize your funding sources.

Setting Up Grant Budgets

Learn how to create and manage grant budgets with categories that match funder requirements.

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