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MegAligna

Specialties

Physical therapy EMR for cash-based PT clinics

Physical therapy EMR software documents evaluations and daily notes, tracks plans of care, schedules recurring visits and records timed treatment for billing. MegAligna is built for cash-based PT practices and hybrids that hand insurance to a biller: card payment at the visit, charge data for out-of-network patients, and units drafted from delivered minutes, priced per clinician seat.

PT software built around the cash visit

A cash-based PT visit is an appointment, a note and a card payment. Most PT platforms wrap that sequence in claim-shaped workflow, because insurance billing is what they were built for, and a cash practice ends up clicking through steps it does not need.

In MegAligna the cash visit is the default path. A hybrid practice still seeing insurance patients gets superbills and biller exports from the same chart rather than running a second system alongside.

From evaluation to card payment

  • Included

    Evaluations and daily notes

    Initial evaluation, daily note and re-evaluation templates built from your own fields, with a signed-and-locked lifecycle. Each note is pre-filled from that visit's captured data; last week's objective measures do not copy forward yet.

  • Included

    Plans of care with visit tracking

    Planned frequency and duration against actual attendance, with drop-off visible per patient before it becomes a self-discharge.

  • Included

    Units drafted from delivered minutes

    The visit's delivered minutes become units by the unit length and rounding you set per payer: round down, round to nearest, or fractional. Neither Medicare's pooled 8-minute rule nor the AMA per-code rule is modelled, and each booked visit carries one code, so a visit mixing timed codes needs its units set by your biller.

  • Included

    Card payments and balances

    Per-visit card payment and patient balances for the cash side, and per-session exports for the out-of-network side. Prepaid visit packages are not built, and the superbill and CMS-1500 documents themselves are gated on AMA CPT licensing.

  • Not included · v2

    In-network Medicare claims workflow

    Not offered. Claims are not submitted from here, and Medicare-specific billing compliance, threshold tracking and plan-of-care certification workflow, is not carried. In-network-heavy clinics need a platform built for that work.

The 8-minute rule, the KX threshold and the certification clock

Three Medicare mechanics decide whether an in-network PT visit is paid, and a cash-based practice should know exactly which of them this software carries.

The 8-minute rule. Timed-unit errors are the most common billing leak in PT. One minute decides a unit at the 22-and-23-minute boundary, and Medicare’s pooled rule and the AMA per-code rule can produce different unit counts on the same visit. Here, units are drafted from the visit’s delivered minutes under a per-payer rounding setting; the pooled Medicare calculation across several timed codes is not modelled. The 8-minute rule calculator runs both rules side by side for a visit you want to check by hand, and the 8-minute rule explained covers the arithmetic itself.

The KX threshold. For 2026, once a patient’s PT and speech therapy together pass $2,480 in the year, Medicare denies further claims unless the KX modifier attests that the care is still medically necessary. The software does not count a patient’s spend against that threshold or append KX.

Plan-of-care certification. Medicare outpatient therapy runs under a plan of care that a physician or qualifying practitioner certifies, and recertifies at least every 90 days. Plans of care and visit tracking are here; the certification and recertification workflow is not, which is a large part of why in-network Medicare clinics are pointed elsewhere.

The rest of the billing surface (modifiers, superbills for the out-of-network side, and what your biller actually receives) is covered in physical therapy billing software.

Common questions

Does it apply Medicare's 8-minute rule automatically?
No. Units are drafted from each visit's delivered minutes using the unit length and rounding you set for the payer. Medicare's rule pools minutes across all timed codes in a visit, which is not modelled, so Medicare visits need units confirmed by your biller. The free calculator shows the correct count for a visit.
Does it track the KX threshold or plan-of-care recertification?
Neither. Plans of care and attendance against them are tracked, but spend against the annual KX threshold and the 90-day recertification clock are not. A practice with a large Medicare caseload needs a system built for that work.
What about Medicare patients at a cash practice?
The rules for treating Medicare beneficiaries in a cash model are specific and depend on your enrollment status and the service provided. That is a compliance decision for the practice and its advisor rather than one the software can resolve, so confirm it before treating those patients on a cash basis.

Document a test evaluation and daily note

14 days, no card required. Use made-up patients while you evaluate: real patient information waits until a business associate agreement is in place.

Sources

  1. CMS Therapy Services: CY 2026 KX modifier threshold of $2,480 for PT and SLP combined, and claims above it without KX are denied (checked October 14, 2026)
  2. 42 CFR 424.24(c): outpatient therapy plans of care must be certified by a physician or qualifying practitioner and recertified at least every 90 days (checked October 14, 2026)