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Healthcare Medicine

Top 10 Best Gastroenterology Emr Software of 2026

Discover the best Gastroenterology EMR software to streamline your practice. Compare top options and choose the right fit today.

Gitnux Team

Feb 11, 2026

10 tools comparedExpert reviewed
Independent evaluation · Unbiased commentary · Updated regularly
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Gastroenterology practices rely on specialized software to manage complex workflows, from endoscopy documentation to coding and reporting. With a diverse array of tools available, selecting the right solution is critical for operational efficiency, compliance, and patient care quality. The following rankings highlight the top options tailored to these unique needs.

Quick Overview

  1. 1#1: gGastro - Specialized EHR and practice management platform tailored for gastroenterology with AI-driven charting and MIPS reporting.
  2. 2#2: Provation MD - Cloud-based endoscopy documentation software that streamlines procedure reporting, coding, and quality metrics for GI practices.
  3. 3#3: EndoSoft - Comprehensive endoscopy information management system for capturing, reporting, and archiving GI procedures and images.
  4. 4#4: EndoVault - Cloud-based GI endoscopy platform offering structured documentation, image management, and registry integration.
  5. 5#5: Praxis EMR - AI-powered, template-free EMR with customizable workflows optimized for gastroenterology documentation.
  6. 6#6: NextGen Healthcare - Ambulatory EHR with gastroenterology-specific templates, analytics, and population health tools.
  7. 7#7: eClinicalWorks - Integrated EHR solution with GI-focused features, telehealth, and patient portal for gastroenterology practices.
  8. 8#8: athenaOne - Cloud EHR platform providing revenue cycle management and specialty content for gastroenterologists.
  9. 9#9: Epic - Enterprise-grade EHR with robust gastroenterology modules for large-scale procedure tracking and interoperability.
  10. 10#10: Oracle Health - Comprehensive health platform with Cerner EHR capabilities supporting GI workflows and analytics.

Tools were evaluated based on gastroenterology-specific features (e.g., AI-driven charting, endoscopy tracking), user-friendliness, data security, and overall value, ensuring they align with the demands of modern GI practices.

Comparison Table

Gastroenterology practices rely on EMR software to optimize patient care workflows, yet choosing the right tool demands thorough assessment. This comparison table evaluates key solutions—including gGastro, Provation MD, EndoSoft, EndoVault, Praxis EMR, and more—to help practices identify top options based on features, usability, and integration with clinical needs.

1gGastro logo9.5/10

Specialized EHR and practice management platform tailored for gastroenterology with AI-driven charting and MIPS reporting.

Features
9.8/10
Ease
8.9/10
Value
9.2/10

Cloud-based endoscopy documentation software that streamlines procedure reporting, coding, and quality metrics for GI practices.

Features
9.6/10
Ease
8.7/10
Value
8.9/10
3EndoSoft logo8.7/10

Comprehensive endoscopy information management system for capturing, reporting, and archiving GI procedures and images.

Features
9.2/10
Ease
7.8/10
Value
8.1/10
4EndoVault logo8.7/10

Cloud-based GI endoscopy platform offering structured documentation, image management, and registry integration.

Features
9.2/10
Ease
8.0/10
Value
8.4/10
5Praxis EMR logo8.2/10

AI-powered, template-free EMR with customizable workflows optimized for gastroenterology documentation.

Features
8.5/10
Ease
7.8/10
Value
8.0/10

Ambulatory EHR with gastroenterology-specific templates, analytics, and population health tools.

Features
8.8/10
Ease
7.4/10
Value
7.9/10

Integrated EHR solution with GI-focused features, telehealth, and patient portal for gastroenterology practices.

Features
8.0/10
Ease
6.5/10
Value
7.0/10
8athenaOne logo8.1/10

Cloud EHR platform providing revenue cycle management and specialty content for gastroenterologists.

Features
8.4/10
Ease
7.6/10
Value
7.9/10
9Epic logo8.7/10

Enterprise-grade EHR with robust gastroenterology modules for large-scale procedure tracking and interoperability.

Features
9.4/10
Ease
7.1/10
Value
8.0/10

Comprehensive health platform with Cerner EHR capabilities supporting GI workflows and analytics.

Features
8.2/10
Ease
6.5/10
Value
6.8/10
1
gGastro logo

gGastro

specialized

Specialized EHR and practice management platform tailored for gastroenterology with AI-driven charting and MIPS reporting.

Overall Rating9.5/10
Features
9.8/10
Ease of Use
8.9/10
Value
9.2/10
Standout Feature

EndoCrypt AI-driven procedure note generation with seamless image/video integration

gGastro by Modernizing Medicine is a cloud-based EMR software tailored specifically for gastroenterology practices, offering streamlined workflows for endoscopy procedures, patient charting, and billing. It features specialty-specific templates, integrated image and video management for scopes, and AI-powered tools like NotaGenie for ambient documentation. The platform supports MIPS reporting, patient portals, and telehealth, making it a comprehensive solution for GI specialists.

Pros

  • Specialty-specific templates and endoscopy workflows that save significant documentation time
  • Integrated imaging and video capture with automatic embedding in reports
  • Robust compliance tools for MIPS, MACRA, and GI-specific quality measures

Cons

  • Higher pricing tier compared to general-purpose EMRs
  • Steep initial learning curve for full customization and optimization
  • Cloud dependency may concern practices with unreliable internet

Best For

Mid-to-large gastroenterology practices focused on high-volume endoscopy procedures needing specialized, efficient EMR tools.

Pricing

Custom subscription pricing, typically $600-$1,200 per provider/month including implementation, training, and support.

Visit gGastromodernizingmedicine.com
2
Provation MD logo

Provation MD

specialized

Cloud-based endoscopy documentation software that streamlines procedure reporting, coding, and quality metrics for GI practices.

Overall Rating9.2/10
Features
9.6/10
Ease of Use
8.7/10
Value
8.9/10
Standout Feature

Provation Decision Trees: Intelligent, clinician-driven templates that auto-populate findings, coding, and quality measures in real-time.

Provation MD is a specialized gastroenterology EMR software focused on procedural documentation for endoscopy procedures, offering clinician-built templates, voice dictation, and image management. It automates report generation, ensures accurate coding compliance (e.g., HCC, CPT), and integrates seamlessly with major EHRs like Epic, Cerner, and athenahealth. Designed for high-volume GI practices, it significantly reduces documentation time while maintaining structured, high-quality outputs for procedures like colonoscopies and EGDs.

Pros

  • Extensive library of GI-specific, evidence-based templates with automation
  • Seamless EHR integrations and real-time data population
  • Voice recognition and photo/video documentation for efficient workflows

Cons

  • High initial cost and custom pricing model
  • Learning curve for full template customization
  • Primarily procedural-focused, requiring supplemental EMR for office management

Best For

High-volume gastroenterology practices and endoscopy centers prioritizing fast, compliant procedure documentation.

Pricing

Quote-based subscription; typically $1,200-$3,000 per provider/month based on procedure volume and features.

Visit Provation MDprovation.com
3
EndoSoft logo

EndoSoft

specialized

Comprehensive endoscopy information management system for capturing, reporting, and archiving GI procedures and images.

Overall Rating8.7/10
Features
9.2/10
Ease of Use
7.8/10
Value
8.1/10
Standout Feature

Real-time structured endoscopy reporting with voice-enabled dictation and automatic quality metric generation

EndoSoft is a specialized electronic medical record (EMR) software tailored for gastroenterology practices, focusing on endoscopy procedures like EGDs, colonoscopies, and ERCPs. It provides comprehensive procedure reporting with customizable templates, voice recognition for dictation, and robust image/video capture and management. The platform supports HL7 integrations, compliance reporting, and multi-site operations to streamline GI workflows.

Pros

  • Highly specialized endoscopy reporting with procedure-specific templates and voice dictation
  • Excellent image and video management with annotation and archiving capabilities
  • Strong interoperability via HL7 and DICOM for seamless integration with PACS and HIS

Cons

  • Dated Windows-based interface that feels less modern compared to cloud-native EMRs
  • Steep learning curve for new users due to extensive customization options
  • Pricing requires custom quotes and can be expensive for smaller practices

Best For

Mid-sized to large gastroenterology clinics or endoscopy centers needing robust, procedure-focused EMR with advanced imaging tools.

Pricing

Custom pricing based on users/sites; typically $10,000-$50,000 initial license per workstation plus annual maintenance fees.

Visit EndoSoftendosoft.com
4
EndoVault logo

EndoVault

specialized

Cloud-based GI endoscopy platform offering structured documentation, image management, and registry integration.

Overall Rating8.7/10
Features
9.2/10
Ease of Use
8.0/10
Value
8.4/10
Standout Feature

Direct integration with endoscopy towers for real-time image capture and auto-populated structured reports

EndoVault is a specialized EMR and practice management software designed specifically for gastroenterology and endoscopy practices. It provides structured procedure reporting, image and video capture directly from endoscopic equipment, voice recognition dictation, and seamless workflow integration from scheduling to billing. The platform emphasizes efficiency in high-volume GI suites with features like auto-populated reports and HIPAA-compliant cloud storage.

Pros

  • Tailored endoscopy-specific tools like scope integration and structured reporting streamline GI procedures
  • Robust image/video management with annotation and archiving capabilities
  • Voice recognition and macros reduce documentation time significantly

Cons

  • Steep learning curve for non-endoscopy staff due to specialized interface
  • Pricing can be higher than general-purpose EMRs for smaller practices
  • Limited interoperability with non-GI systems without custom setup

Best For

Mid-to-large gastroenterology practices with high endoscopy volumes needing specialized procedure documentation and equipment integration.

Pricing

Custom pricing; typically $400-$800 per user/month depending on practice size and modules, with implementation fees.

Visit EndoVaultendovault.com
5
Praxis EMR logo

Praxis EMR

specialized

AI-powered, template-free EMR with customizable workflows optimized for gastroenterology documentation.

Overall Rating8.2/10
Features
8.5/10
Ease of Use
7.8/10
Value
8.0/10
Standout Feature

Concept Engine AI that learns from the physician's input to auto-generate future notes in their exact style

Praxis EMR is an AI-driven electronic medical records platform that uses a unique Concept Engine to learn and adapt to each physician's documentation style, eliminating rigid templates. For gastroenterology practices, it supports detailed charting for procedures like colonoscopies, endoscopies, and EGDs, along with management of IBD, liver disease, and motility disorders. The system emphasizes speed, interoperability via HL7/FHIR, and customizable workflows to fit specialty-specific needs.

Pros

  • AI-powered Concept Engine adapts to user's charting style for efficient, personalized notes
  • Strong support for GI procedures with customizable templates and reporting
  • Excellent interoperability and data security compliance (HIPAA, MACRA)

Cons

  • Steep initial learning curve due to free-form approach
  • Pricing on the higher end without transparent tiers
  • Mobile app functionality lags behind desktop version

Best For

Gastroenterologists in busy practices who value adaptive AI charting over template-based systems and need flexibility for complex procedure documentation.

Pricing

Subscription-based at approximately $350-$600 per provider per month, with custom quotes and potential EMR buyback incentives.

Visit Praxis EMRpraxisemr.com
6
NextGen Healthcare logo

NextGen Healthcare

enterprise

Ambulatory EHR with gastroenterology-specific templates, analytics, and population health tools.

Overall Rating8.2/10
Features
8.8/10
Ease of Use
7.4/10
Value
7.9/10
Standout Feature

Open Platform API enabling seamless third-party integrations for GI-specific tools like procedure imaging and pathology systems

NextGen Healthcare provides a robust, enterprise-level EHR/EMR platform with specialty-specific modules for gastroenterology practices. It offers customizable templates for GI procedures like colonoscopies, endoscopies, and pathology reporting, alongside integrated practice management, e-prescribing, and billing tools. The system emphasizes interoperability, population health management, and analytics to support comprehensive patient care in ambulatory settings.

Pros

  • Comprehensive specialty templates and workflows for GI procedures including endoscopy reporting
  • Strong interoperability with HL7/FHIR standards and diagnostic imaging systems
  • Advanced revenue cycle management and analytics for practice efficiency

Cons

  • Steep learning curve and less intuitive interface for new users
  • Lengthy and costly implementation process
  • Higher pricing compared to smaller GI-focused EMRs

Best For

Mid-to-large gastroenterology practices needing scalable enterprise features and deep integrations.

Pricing

Custom enterprise pricing; typically $400-$700 per provider/month plus implementation fees starting at $50K+.

7
eClinicalWorks logo

eClinicalWorks

enterprise

Integrated EHR solution with GI-focused features, telehealth, and patient portal for gastroenterology practices.

Overall Rating7.2/10
Features
8.0/10
Ease of Use
6.5/10
Value
7.0/10
Standout Feature

Specialized endoscopy module with customizable procedure notes, image integration, and automated coding for GI workflows

eClinicalWorks is a comprehensive, cloud-based EHR and practice management platform tailored for various specialties, including gastroenterology, providing tools for patient records, scheduling, billing, and telehealth. For gastroenterology practices, it offers specialty-specific templates for endoscopy procedures, colonoscopy documentation, pathology integration, and procedure coding support. The system emphasizes scalability, interoperability with labs and imaging, and patient engagement through the healow app and portal.

Pros

  • Specialty-specific templates and workflows for GI procedures like endoscopy and colonoscopy reporting
  • Integrated practice management, billing, and telehealth capabilities
  • Scalable for small to large practices with strong interoperability and mobile access

Cons

  • Steep learning curve and less intuitive interface compared to modern competitors
  • Customization requires significant time and vendor support
  • Inconsistent customer service and occasional system performance issues

Best For

Mid-sized gastroenterology practices needing a robust, all-in-one EMR with procedure-focused tools and scalability.

Pricing

Quote-based pricing, typically $400-$700 per provider per month plus implementation fees starting at $5,000-$20,000.

Visit eClinicalWorkseclinicalworks.com
8
athenaOne logo

athenaOne

enterprise

Cloud EHR platform providing revenue cycle management and specialty content for gastroenterologists.

Overall Rating8.1/10
Features
8.4/10
Ease of Use
7.6/10
Value
7.9/10
Standout Feature

End-to-end endoscopy workflow with procedure-specific documentation and automated coding suggestions

athenaOne by athenahealth is a cloud-based EHR platform that integrates clinical documentation, scheduling, billing, and patient engagement for gastroenterology practices. It offers specialty-specific tools like customizable endoscopy templates, procedure tracking, and integration with GI diagnostic equipment for efficient workflow management. The system emphasizes interoperability via FHIR APIs and robust revenue cycle management to support MIPS reporting and financial optimization.

Pros

  • Comprehensive GI-specific templates for endoscopy and procedures
  • Strong interoperability and revenue cycle management
  • Cloud-based with reliable uptime and mobile access

Cons

  • Steep learning curve for advanced features
  • Higher pricing with implementation fees
  • Customization often requires vendor assistance

Best For

Mid-sized gastroenterology practices seeking an integrated EHR with strong billing and compliance tools.

Pricing

Subscription model starting at $400-$500 per provider per month, plus one-time implementation fees of $5,000+ and add-ons for advanced features.

Visit athenaOneathenahealth.com
9
Epic logo

Epic

enterprise

Enterprise-grade EHR with robust gastroenterology modules for large-scale procedure tracking and interoperability.

Overall Rating8.7/10
Features
9.4/10
Ease of Use
7.1/10
Value
8.0/10
Standout Feature

Integrated procedural workflows with real-time pathology and imaging linkage for streamlined GI endoscopy reporting

Epic is a comprehensive enterprise-level electronic health record (EHR) system that supports gastroenterology practices with specialized templates for procedures like colonoscopies, endoscopies, and capsule studies, along with integrated pathology and imaging workflows. It offers robust interoperability through Care Everywhere, enabling seamless data sharing across providers, and advanced analytics for tracking GI outcomes and quality metrics. Designed for large-scale health systems, it provides a unified patient record but requires extensive customization and training for optimal use in GI settings.

Pros

  • Highly customizable GI procedure documentation and templates
  • Superior interoperability and data exchange capabilities
  • Advanced analytics for GI quality measures and population health

Cons

  • Steep learning curve and extensive training required
  • Prohibitively expensive for small or mid-sized practices
  • Lengthy and complex implementation process

Best For

Large hospitals and multi-specialty health systems with high-volume gastroenterology departments needing enterprise-wide integration.

Pricing

Custom enterprise pricing with implementation costs often exceeding $1 million and annual subscriptions scaling with user volume and modules.

Visit Epicepic.com
10
Oracle Health logo

Oracle Health

enterprise

Comprehensive health platform with Cerner EHR capabilities supporting GI workflows and analytics.

Overall Rating7.4/10
Features
8.2/10
Ease of Use
6.5/10
Value
6.8/10
Standout Feature

AI-powered clinical decision support tailored for GI procedures, providing real-time pathology analysis and risk stratification.

Oracle Health, formerly Cerner, is a comprehensive enterprise EHR platform that supports gastroenterology practices with specialized workflows for endoscopy procedures, colonoscopy documentation, and GI pathology integration. It offers robust patient record management, interoperability via FHIR standards, and AI-driven clinical insights to enhance diagnostic accuracy in digestive health. Designed primarily for large health systems, it streamlines multidisciplinary care coordination for complex gastroenterology cases.

Pros

  • Enterprise-grade scalability for high-volume gastro clinics
  • Strong interoperability and FHIR compliance for seamless data exchange
  • Specialized templates for endoscopy reporting and procedure tracking

Cons

  • Steep learning curve due to complex interface
  • High implementation and customization costs
  • Less intuitive for small, independent practices compared to niche gastro EMRs

Best For

Large hospital-based gastroenterology departments handling high patient volumes and requiring integration with broader health systems.

Pricing

Custom enterprise pricing starting at $500+ per user/month, with significant upfront implementation fees often exceeding $1M for full deployments.

Visit Oracle Healthoracle.com/health

Conclusion

Evaluating gastroenterology EMR software reveals distinct strengths, with gGastro leading as the top choice due to its AI-driven charting and specialized MIPS reporting, tailored for precision and compliance. Provation MD follows, excelling in streamlining endoscopy documentation and coding, while EndoSoft rounds out the top three with robust comprehensive tracking and archiving capabilities, catering to varied workflow needs. Each of the top three offers unique value, ensuring a fit for nearly every GI practice.

gGastro logo
Our Top Pick
gGastro

Take the step to enhance your practice’s efficiency—explore gGastro, the top-ranked platform built to meet the unique demands of gastroenterology, and discover how tailored technology can transform your workflows.