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Title Description Type of Content
California Aquatic Resource Inventory (CARI) GIS Data The California Aquatic Resources Inventory (CARI) is a Geographic Information System (GIS) dataset… Data
Baylands Habitat Map 2020 (BHM 2020) Version 1.3 GIS Data The Baylands Habitat Map 2020 (BHM2020) represents the condition of the San Francisco Bay Baylands… Data
California Aquatic Resource Inventory v3.3 has been published! This latest update integrates two of SFEI’s recent regional semi-automated mapping efforts into the… News
New Basemap of Surface Waters and Riparian Areas in the Russian River Watershed In collaboration with regional partners, SFEI is developing a comprehensive standardized basemap to… News
A Milestone! 10,000 Wetland Condition Assessments Publicly Shared on EcoAtlas On November 11, 2025 we reached an exciting milestone: 10,000 wetland condition assessments are now… News
Tracking Coastal Habitat Change Over Time: Considerations for a Statewide Mapping Program Managing California’s coastal habitats and tracking progress requires up-to-date and comprehensive… News
WRMP Releases Multiple Tools for Region-wide Planning This summer marks a major milestone in regional data collection as the Wetlands Regional Monitoring… News
Tracking Tidal Wetland Extent in San Francisco Bay The Wetlands Regional Monitoring Program updates acreage, highlighting restoration efforts. The… News
Helping California Track and Protect Its Wetlands With millions spent on restoration projects across California, how are we able to consistently… News
Data Access for Selected Russian River Watershed Health Indicators This page provides access to tabular data (in excel format) summarized in a Russian River Regional… Data
Wetlands Regional Monitoring Program (WRMP) The Wetlands Regional Monitoring Program (WRMP) is a collaborative regional monitoring program… Project
Habitat Assessment & Monitoring The habitat monitoring and assessment team develops and implements regional monitoring plans and… Focus Area
Wetlands Assessment Focus Area
Enhanced Landscape Profile Modes in EcoAtlas deliver new insights EcoAtlas is a mapping and geographic data visualization tool that continues to evolve to… News
EcoAtlas Toolset Training and Outreach Plan EcoAtlas contains tools for mapping and tracking, rapid conditional assessment, linkages to… Project
Sediment Solutions Sediment Solutions is a timely and innovative project that builds on SFEI’s past work,… Project
California Rapid Assessment Method for Wetlands (CRAM) HDC and CDF Data This page provides public access to tabular datasets for the CRAM Habitat Development Curves (HDCs)… Data
Vernal Pool Habitat Restoration and Protection CRAM Tools for the Central Valley, CA The California Wetland Program Plan (WPP) seeks to strengthen protection for wetlands in many ways,… Project
Changes in the Distribution of Great Valley Vernal Pool Habitats from 2005 to 2018 This mapping documents the changes in extent and condition of vernal pool habitat in the Great… Data
Coastal Wetlands, Beaches and Watersheds Inventory The Ocean Protection Council (OPC) and SFEI will develop an inventory of the wetlands and other… Project
SF Estuary Wetlands Regional Program Plan Released! The Wetland Regional Monitoring Program (WRMP) Plan has been released! The WRMP will improve… News
EcoAtlas EcoAtlas is a set of tools for visualizing, sharing, summarizing, and reporting on standardized… Project
Upper Penitencia Creek: Resilient Landscape Vision The San Francisco Estuary Institute-Aquatic Science Center and the Santa Clara Valley Water… Project
Tracking Habitat Restoration Performance Measures This collaborative project was funded by the USEPA to enhance the functionality of EcoAtlas Project… News
Dashboards track cumulative benefits on the landscape EcoAtlas dashboards are comprehensive views of qualified information provided by Project Tracker… News
Russian River Watershed Projects at the San Francisco Estuary Institute Our projects in the Russian River Watershed help us to understand our past, understand our present,… Project
Healthy Watersheds Resilient Baylands Through the EPA-funded Healthy Watersheds Resilient Baylands project, SFEI and sixteen partner… Project
SFEI Unoccupied Aerial Systems SFEI has invested in novel, cost-effective solutions to costly problems. Most recently, our work… Project
New data layers and Landscape Profile mode added to EcoAtlas New data layers and Landscape Profile mode have been added to EcoAtlas (ecoatlas.org), an online… News
Developing a Sustainable Business Model for the EcoAtlas Toolset This project is funded by a USEPA wetland development grant (2015-2017) to develop a… Project
The Delta as Changing Landscapes - Presentation by Letitia Grenier The Delta Science Program, CDFW Watershed Restoration Grants Branch, and the Surface Water… News
Evaluation of CRAM performance for assessing wetland stress, small wetlands, and wetland habitat development Caltrans funded this wetlands research to fill important gaps in knowledge about the ability of the… Project
Lahontan EcoAtlas Workshop #3 Event
Get on the curve: Habitat Development Curves help determine the performance of on-the-ground projects How do you know if the ecological conditions of your wetland project are aligned with expected… News
CRAM BBE module now available! With funding from the State Coastal Conservancy, SFEI staff developed the eCRAM data entry forms… News
Tahoe Aquatic Resource Inventory (TARI) Version 2.1 GIS Data TARI (Tahoe Aquatic Resource Inventory) was established to meet regional needs for wetlands and… Data
EcoAtlas Habitat Projects Data, Web Service and REST API California's EcoAtlas provides access to project tracking information for effective wetland… Data
California Rapid Assessment Method (CRAM) Data and Web Service CRAM is a standardized, scientifically defensible rapid assessment method for monitoring the… Data
New Project Tracker online forms New Project Tracker online forms enhance EcoAtlas' regional capacity for habitat restoration… News
Historical Ecology for Lower Walnut Creek promises to deliver insights at an upcoming event SFEI scientists Sean Baumgarten and Scott Dusterhoff will present findings from the Lower Walnut… News
Baylands Goals Report Released to a Flurry of Media Attention An update to the 1999 Bayland Ecosystem Habitat Goals, the new report called… News
KQED Forum: Bay Area Infrastructure, Communities at Risk Without Wetlands Restoration On KQED Forum, Michael Krasny interviewed SFEI's Letitia Grenier and the State Coastal… News
Baylands Ecosystem Habitat Goals Project SFEI's Letitia Grenier served as lead scientist of the Baylands Ecosystem Habitat Goals… Project
EcoAtlas: New Map Enhancements The latest release of EcoAtlas (v4.1) includes two new map enhancements: News
EcoAtlas: New CARI Editor and Modern Delta Habitat Types An accurate basemap is fundamental to watershed planning and assessments. The California Aquatic… News
California Rapid Assessment Method (CRAM): Slope Wetlands CRAM is a cost-effective and scientifically defensible rapid assessment method for monitoring and… Project
BAARI v2.0 is now available! Version 2 of the BAARI (Bay Area Aquatic Resource Inventory) GIS dataset has been released. Local… News
California Rapid Assessment Method (CRAM): Bar-Built Estuarine Wetlands  The CRAM Bar-Built Estuarine module is used for assessing reaches of coastal rivers… Project
Santa Rosa Plain Wetlands Profile: A Demonstration of WRAMP The Santa Rosa Plain WRAMP project demonstrated the use of the State’s standardized monitoring and… Project
Tahoe WRAMP Demonstration: Watershed Assessment The Tahoe WRAMP Watershed Demontration Project transfered statewide wetland monitoring and… Project
Santa Rosa Plain WRAMP (NCARI) Version 1.0 GIS Data GIS mapping of aquatic resources for the Laguna De Santa Rosa valley basin. This mapping… Data
Eelgrass Data Management and Project Tracking Eelgrass (Zostera marina and Z. pacifica) is recognized as an important ecological… Project
Visualizing and Sharing Intensive Data Assessments With California's drought rapidly changing the outlook for natural resources, decision-makers must… Project
Lahontan EcoAtlas Development This project will create an EcoAtlas user community for the Lahontan region of the Sierra… Project
Habitat Restoration Project Tracking This project will expand the current capabilities of the wetland project tracking system for… Project
Bay Area Aquatic Resource Inventory (BAARI) Version 2.1 GIS Data Bay Area Aquatic Resources Inventory (BAARI) is a detailed base map of the Bay Area's aquatic… Data
Statewide Wetland Tracking, Science, and Policy Development Support SFEI’s Wetland Science Focus Area’s Director, Josh Collins, is a leader in the coordination of… Project
Monitoring Streams in Five Watersheds in Santa Clara County Since 2010, SFEI has supported Valley Water in implementing ambient monitoring employing the WRAMP… Project
Six County Aquatic Resource Inventory The US Army Corps of Engineers, Sacramento Division updated wetland and stream maps for the 6… Project
Southern California Wetland Mapping Project Southern California Coastal Research Watershed Project and CSU Northridge-Center for… Project
North Coast WRAMP Demonstration: Mapping Standards The North Coast WRAMP Demonstation Project focused on mapping and assessing the condition of… Project
Tahoe WRAMP Demonstration: Mapping Standards The Tahoe WRAMP Demonstration Project implemented detailed and standardized mapping protocols… Project
North Bay Mercury Biosentinel Monitoring In 2011-2014 SFEI and UC Davis developed and implemented a multi-species biosentinel monitoring… Project
RipZET: A GIS-based Tool for Estimating Riparian Zones The Riparian Zone Estimator Tool (RipZET) is a decision support tool developed by the San Francisco… Project
Mapping Shoreline Change in San Pablo Bay Using a systematic, empirical, and repeatable approach, we mapped the location of the shorelines in… Project
Transitional Ecotone Vegetation Data Management System Upload and access data from vegetation surveys of intertidal-upland ecotones Project
Online 401 Application Tool This tool provides a permit negotiation tool for applicants and Regional Water Board staff to work… Project
Contaminant Data Download and Display (CD3) Contaminant Data Display and Download Tool or CD3 is an innovative visualization tool for… Project
Bay Area Aquatic Resource Inventory (BAARI) The Bay Area Aquatic Resources Inventory (BAARI) is a GIS base map of the Bay Area's… Project
BAARI Mapping Documentation The Bay Area Aquatic Resource Inventory (BAARI) is a basemap of all tidal and non-tidal aquatic… General Content
California Aquatic Resource Inventory (CARI) The California Aquatic Resources Inventory (CARI) is a Geographic Information System (GIS)… Project
Montezuma Technical Review Team The Montezuma wetland restoration project is returning ~2,000 acres of diked baylands to tidal… Project
Wetlands Regional Monitoring Project This Prop 50 - funded project was a three-year effort to monitor and track changes in Bay Area… Project
California Wetlands Portal The California Wetlands Portal, part of the State of California’s My Water Quality portal, is the… Project
National Hydrography Dataset (NHD) Data Stewardship As the San Francisco Bay Area Regional Steward for the USGS National Hydrography Dataset,… Project
South Bay Salt Pond Landscape Synthesis Report This synthesis focuses on the form and function of South Bay landscapes to address the following… Project

Publications

Title Abstract Year of Publication
2024 San Diego Regional Board Mitigation and SEP Project Assessments 2025
A Compilation and Retrospective Assessment of Selected Russian River Watershed Health Indicators 2025
EcoAtlas Essentials Webinar Showcases Practical Tools for Ecological Planning On October 1, 2025, the San Francisco Estuary Geospatial Workgroup (SFEGWG) hosted EcoAtlas Essentials: Practical Tools for Effective Ecological Planning, a webinar designed to guide… 2025
Lake Silveira CRAM Assessments: Mitigation Monitoring Report Post-Construction - Year 5 (2025) The Santa Clara Valley Water District’s (Valley Water) Upper Llagas Creek Flood Protection Project (Project) aims to increase flood protection within the City of Morgan Hill and surrounding… 2025
Fact Sheet: How to Generate a Watershed Profile in EcoAtlas 2024
Guadalupe River Watershed Reassessment 2022: 10-Year Reassessment of the Ecological Condition of Streams Based on the California Rapid Assessment Method The baseline survey of ecological condition of streams within the Guadalupe River watershed was completed in 2012, and this reassessment survey was completed ten years later in 2022. The survey… 2024
WRAMP Training and Outreach Plan The goal of this Training and Outreach Plan is to increase the overall awareness and use  of the WRAMP datasets and tools in support of wetland resource planning,  management, and project… 2023
Lahontan Surface Water Ambient Monitoring Program’s 20-Year Water Quality Review and Program Recommendations This 20-year water quality monitoring status and trends report for the Lahontan Water Board’s Surface Water Ambient Monitoring Program (Regional SWAMP) provides an overview of the environmental… 2023
Building Capacity of the California Wetland Program Plan to Protect and Restore Vernal Pools This report describes the updates to the vernal pool habitat map, the development of the ambient baseline ecological condition survey of vernal pool systems within the Central Valley, and the… 2022
Coyote Creek Watershed Reassessment 2020: 10-Year Reassessment of the Ecological Condition of Streams Applying the California Rapid Assessment Method, Santa Clara County, California This report describes the amount and distribution of aquatic resources in the Coyote Creek watershed, Santa Clara County, California, and presents the first reassessment of stream ecosystem… 2021
Remote Sensing Recommendations for Tidal Wetland Indicators This document presents potential products and methods for monitoring a suite of tidal wetland habitat indicators designated for the Montezuma Wetlands Project using remote sensing technology. This… 2021
Aquatic, Wetland, and Riparian Habitat Mapping Committee -- Draft Charter 2021
Coyote Creek Watershed Reassessment 2020 Ambient Stream Condition Survey Design and Monitoring Plan: A Review of the Original 2010 Survey Design and Development of the 2020 Reassessment Strategy This technical report describes the ten-year ambient stream condition reassessment survey design and monitoring plan (or strategy) for the Coyote Creek watershed. Because the reassessment employed… 2020
Santa Clara County Five Watersheds Assessment: A Synthesis of Ecological Data Collection and Analysis Conducted by Valley Water This report synthesizes the baseline assessments for Santa Clara County’s five watersheds to present similarities, differences, and compare ecological condition in streams across watersheds and their… 2020
West Valley Watershed Assessment 2018: Baseline Ecological Condition Assessment of Southwest San Francisco Bay Creeks in Santa Clara County; Calabazas, San Tomas Aquino, Saratoga, Sunnyvale East and West This report describes baseline information about the amount and distribution of aquatic resources, and evaluates the overall ecological conditions of streams using the California Rapid Assessment… 2019
Prioritizing Candidate Green Infrastructure Sites within the City of Ukiah: A Demonstration of the Site Locator Tool of GreenPlan-IT. Report prepared for the City of Ukiah Department of Public Works under Supplemental Environmental Project # R1-018-0024 This report describes the application of GreenPlan-IT’s Site Locator Tool to identify and rank candidate GI installation sites within the City of Ukiah.  The Site Locator Tool is the… 2019
Using The California Rapid Assessment Method (CRAM) For Project Assessment as an Element of Regulatory, Grant, and Other Management Programs Technical Bulletin – Version 2.0 The California Rapid Assessment Method (CRAM) is a tool for assessing the condition of wetlands and streams at scales ranging from individual projects to watersheds, regions, and statewide. CRAM,… 2019
North Bay Mercury Biosentinel Project: 2016 - 2017 2018
West Valley Watershed Assessment 2018: Study Area Extent, Stream Survey Design, Sample Frame, and Sample Draw This memorandum describes the steps taken by the D5 Project and SFEI project team to identify theextent of the West Valley watershed study area, define the CRAM stream survey design parameters,and… 2018
Applied Aquatic Science: A Business Plan for EcoAtlas The following plan is intended to ensure the continued vitality of the toolset. The plan’s success will depend upon the continued collaboration of the public agencies that have supported the toolset… 2017
Delta Landscapes: A Delta Renewed User Guide A Delta Renewed User Guide aims to increase the accessibility of the technical findings in A Delta Renewed for easier application to restoration and conservation efforts across the Delta. The… 2017
Delta Landscapes Executive Summary 2017
Lower Peninsula Watershed Condition Assessment 2016: Southwest San Francisco Bay, Santa Clara County, San Francisquito to Stevens Creeks. Technical memorandum prepared for the Santa Clara Valley Water District 2017
MS4 2009 Permit Monitoring Results (2010-2015) Summary of Sonoma County Water Agency’s Data for two Sites in Santa Rosa Creek This memo summarizes the Sonoma County Water Agency's  2009 receiving water monthly monitoring results for the North Coast Regional Water Quality Control Board's NPDES Permit No. R1… 2017
A Watershed Approach to Restoration and Mitigation Planning, Monitoring, and Assessment Based on the Wetland and Riparian Area Monitoring Plan (WRAMP): Addendum to the Upper Pajaro River Watershed Assessment 2015 This report demonstrates a possible watershed-based approach to evaluating mitigation sites using the California Rapid Assessment Method (CRAM). The Santa Clara Valley Water District (Valley Water)… 2017
Demonstration of a Watershed Approach to Wetland Restoration Planning for Load Reductions: A Pilot Demonstration Project Using GreenPlan-IT in the Santa Rosa Plain, Sonoma County, California This summary memorandum presents technical recommendations to the 401 Certification and Waste Discharge Program (401 Program) of the State Water Resources Control Board (State Board) for a coherent,… 2017
Evaluating Wetland Beneficial Uses At Project and Watershed Scales: Santa Rosa Plain 7-Eleven Example This report is an excerpt of the Santa Rosa Plain example from the full Evaluating Wetland Beneficial Uses At Project and Watershed Scales report. 2017
Lower Peninsula Watershed Condition Assessment 2016. Technical memorandum prepared for the Santa Clara Valley Water District - Priority D5 Project. In 2016 The Santa Clara Valley Water District and its consultants conducted a watershed wide survey to characterize the distribution and abundance of the aquatic resources within the Lower… 2016
Upper Pajaro River Watershed Condition Assessment 2015. Technical memorandum prepared for the Santa Clara Valley Water District - Priority D5 Project. In 2015 The Santa Clara Valley Water District and it's consultants conducted a watershed wide survey to characterize the distribution and abundance of the aquatic resources within the upper Pajaro… 2016
An Introduction to EcoAtlas: Applied Aquatic Science This memo was developed by SFEI to introduce the EcoAtlas tools, their intended (target) user community, and the short- and long-term intended applications.  2016
Framework to coordinate water quality improvement and wildlife habitat conservation to protect California streams, wetlands, and riparian areas The emergence of comparable landscape approaches to wildlife conservation and water quality improvement through federal and California state regulatory and management programs provides an opportunity… 2016
California Wetland and Riparian Area Protection Policy. Technical Advisory Team. Technical Memorandum No. 5: Stream Definition (Final Draft) 2016
CRAM Fieldwork 2015 to Support Caltrans Project Tasks 2 & 3 2016
Depressional wetland habitat development curve 2016
Enhancements to EcoAtlas’ CRAM analysis tools: Habitat Development Curves and Ecoregional Cumulative Distribution Function plots (CDFs) 2016
Relationship between wetland condition, stress, and buffer 2016
Relationship between wetland size and CRAM condition scores for depressional wetlands 2016
RipZET: Documentation of Tool Demonstration in Marin County 2016
The effects of aquatic area abundance, buffer, and hydrology on depressional wetland condition based on CRAM 2016
Stream Health of the Coyote Creek and Guadalupe River Watersheds using WRAMP 2015
RipZET: The Riparian Zone Estimation Tool version 2.0 2015
RipZET User's Manual v1.0 2015
Riparian Zone Estimation Tool Hydrologic Connectivity Module: Documentation and Validation of Selected Methodology 2015
The Baylands and Climate Change: What We Can Do. Baylands Ecosystem Habitat Goals Science Update 2015 2015
North Bay Mercury Biosentinel Project (December 2014 Report) 2014
RipZET: A GIS-Based Decision Support Tool for Estimating Riparian Zones at the Watershed and/or Project Scale 2014
Creating Landscape Profiles of Aquatic Resource Abundance, Diversity and Condition 2014
Santa Rosa Plain Wetlands Profile: A Demonstration of the CaliforniaWetland and Riparian Area Monitoring Plan 2014
Fact Sheet: EcoAtlas and CRAM 2014
North Coast Aquatic Resources Inventory (NCARI): Mapping Standards and Methodology for Channels, Wetlands, in the Santa Rosa Plain 2014
Riparian Zone Estimation Tool: Hydrologic Connectivity Module Field Plan 2013
A landscape ecology analysis of San Francisco Bay-Delta marsh then (1850) and now 2013
Statistical Design, Analysis, and Graphics for the Guadalupe River Watershed Assessment 2012 2013
TARI Tahoe Aquatic Resources Inventory. Mapping Standards and Methodology for Channels, Wetlands, and Riparian Areas in the Tahoe Basin 2013
Regional Curves of Hydraulic Geometry for Wadeable Streams In Marin and Sonoma Counties, San Francisco Bay Area 2013
RipZET Python 3x User's Manual v1.0 2013
California Wetland and Riparian Area Protection Policy. Technical Advisory Team. Technical Memorandum No. 2: Wetland Definition 2012
California Wetland and Riparian Area Protection Policy. Technical Advisory Team. Technical Memorandum No. 3: Landscape Framework for Wetlands and Other Aquatic Areas 2012
California Wetland and Riparian Area Protection Policy. Technical Advisory Team. Technical Memorandum No. 4: Wetland Identification and Delineation 2012
Bay Area Aquatic Resources Inventory (BAARI) 2011
Ecological Monitoring & Assessment Framework: Stream Ecosystem Condition Profile: Coyote Creek Watershed 2011
Bioretention Monitoring at the Daly City Library (Case Study Technical Report) 2011
Comparison of Agricultural Runoff from Conventional and Organic Orchards 2010
Concentrations and Loads of Trace Contaminants in the Zone 4 Line A Small Tributary, Hayward, California: Water Year 2007 2009
Dry Creek Watershed Sediment Source Reconnaissance Technical Memorandum 2009
Watershed Specific and Regional Scale Suspended Sediment Load Estimates for Bay Area Small Tributaries 2009
Going Organic Project 2009
Sustainable Cotton Project 2009
Comparison of Agricultural Runoff between Organic Farming and Conventional Chemical Farming 2009
WRMP Fact Sheet — Wetland and Riparian Base Map 2009
Bay Area Base Map 2009
Bay Area Base Map of Aquatic Habitats 2009
California’s Statewide Survey Of Tidal Wetland Condition 2009
California Wetland and Riparian Area Protection Policy. Technical Advisory Team. Technical Memorandum No. 1: Technical Advisory Team 2009
Green Infill for Clean Stormwater (Poster) 2009
Mercury Concentrations and Loads in a Large River System Tributary to San Francisco Bay, California, USA 2009
The Historical Ecology of Miller Creek 2008
The Historical Ecology of Miller Creek 2008
Wetland Tracker Factsheet, Bay Area, Level 1: Landscape Assessment 2008
Wetland Tracker Fact Sheet, Bay Area, Level 1: Landscape Assessment 2008
California Rapid Assessment Method (CRAM) Fact Sheet, Level 2, State version 2008
Developing Tools to Help Protect and Manage California Wetlands, Streams, and Riparian Resources 2008
Development of an environmental indicator system for watershed-based decision-making and tracking the outcomes of beneficial use restoration in the San Joaquin River basin 2008
Pinole Creek Watershed Sediment Source Assessments 2008
Vineyard Management in a Watershed Context: everyone'swater and sediment counts! 2008
Vineyard Management in a Watershed Context: everyone'swater and sediment counts! 2008
Alameda Creek Sediment Forum 2008
Spatiotemporal variation of turbidity in Alameda Creek and selected tributaries: August thru December 2007 2008
Spatiotemporal variation of turbidity in Alameda Creek and selected tributaries: August thru December 2007 2008
Review of sediment gauging studies in Alameda Creek Watershed 2008
Setting Goals and Defining Watershed and Stream "Health" to Better Integrate Policies, Programs, and Projects 2008
Setting Goals and Defining Watershed and Stream "Health" to Better Integrate Policies, Programs, and Projects 2008
Wetland Tracker Factsheet, Level 1: Landscape Assessment, CA State version 2008
Wetland Tracker Fact Sheet, Level 1: Landscape Assessment, CA State version 2008
Appendix 1: All Deliverables Submitted for the Critical Coastal Areas Program, Phase I 2007
CRAM Evaluation of Wetland Conditions 2007
Critical Coastal Areas Program, Phase I Final Report 2007
South Baylands Mercury Project: Developing biosentinel species to monitor changes in food-web mercury for the South Bay Salt Pond Restoration Project 2007
South Baylands Mercury Project: Developing biosentinel species to monitor changes in food-web mercury for the South Bay Salt Pond Restoration Project 2007
Stream Inventory Report for La Honda Creek: Prepared for the Midpeninsula Regional Open Space District 2007
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