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Scientific

Domain ToolType

Description                                     

RepositoriesContact
Deployed?
Hydrology




 

 








Advection Diffusion Solve a general advection-dispersion equation. 
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Chemical Mean AgeExtractorDetermine the mean age of chemical constituents with inputs of chemical dynamics. 
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Document Tables Extractor (ncsa.nlp.wordtables)Extractor
 
Extract tables from documents.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-nlp/browse/WordTablesExtractor
 
 
 
GDAL (ncsa.geo.shpExtractor)Extractor https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-geo/browse
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GDAL (ncsa.geo.tiffExtractor)Extractor https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-geo/browse
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GDAL (ncsa.image.geotiff)Extractor https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-geotiff/browse
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Historical River Extractor (ncsa.cv.river)ExtractorExtract the river networks from the ancient hand-drawing maps and compare them with current river networkshttps://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/river
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Normalized Difference Vegetation Index (ncsa.arcgis.landsat7mosaic)Extractor https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-bd-cz/browse/ndviextractor
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River SinuosityExtractor

River Chi IndexExtractorIdentify the river dynamics in a river basin and evaluate human activities' influences through Chi index in the streams.
 
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https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-bd-cz/browse/chi-analysis
River SinuosityExtractorStudy the maturity and equilibrium conditions of a stream through the sinuosity index.  
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Soil Moisture ChangeExtractorDetermine role of hydraulic redistribution in AZ (riparian site / upland site) by studying soil moisture change throughout different seasons. 
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Species ClassifierExtractorSAM based Species Classification from Hyperspectral data, Hyperspectral Indices, NDVI, SAVI, MSAVI, etc. 

Debsunder Dutta (debsunderdutta@gmail.com) leaving in July 2016

 
TerEx (ncsa.arcgis.floodplain)ExtractorIdentify the flat polygons and the heights inside a river valley.  https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-bd-cz/browse/terex_floodplain
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Topographic DepressionsExtractorIdentify topographic depressions (TDs) and their distribution on landscape (Number, location, area, volume of TDs).
 
https://github.com/HydroComplexity/TDI
Tree DelineationConverterTree-wise voxelization of waveform data for lidar metrics that describes canopy structure (max intensity, height, etc...).  Individual tree delineation, tree leaf area density to describe vertical leaf
distributio
distribution. https://opensource.ncsa.illinois.edu/bitbucket/projects/BD/repos/ir-lidar/browse
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Valley Safety ZonesExtractor
1.
Estimate submerging areas and water depths under extreme floods and map the safety zones in a river valley
and 2
.
Understand river valley equilibrium condition.

 
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Vegetation IndicesExtractorCalculating vegetation indices such as NDVI and Surface Temperature from Landsat 7 and 8 satellite data. 

Debsunder Dutta (debsunderdutta@gmail.com) leaving in July 2016

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Ecology

 






netcdf (ncdump)Converter
 
Convert from binary netcdf to text.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-ncdump/browse
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https

PEcAn (PEcAn#Ameriflux)Converter
 
Convert Ameriflux data to PEcAn's netcdf CF format.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-pecan/browse
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PEcAn (PEcAn#DALEC)Converter
 
Convert PEcAn's netcdf CF format to the format required by the DALEC model.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-pecan/browse
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PEcAn (PEcAn#ED2)Converter
 
Convert PEcAn's netcdf CF format to the format required by the ED model.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-pecan/browse
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https

PEcAn (PEcAn#LINKAGES)Converter
 
Convert PEcAn's netcdf CF format to the format required by the LINKAGES model.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-pecan/browse
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PEcAn (PEcAn#Sipnet)Converter
 PlantCV (terra.plantcv)Extractor https
Convert PEcAn's netcdf CF format to the format required by the Sipnet model.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-pecan/browse
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PEcAn (PEcAn#AmerifluxBNL)

PEcAn (PEcAn#FLUXNET2015)

PEcAn (PEcAn#FACE)

PEcAn (PEcAn#PALEON)

PEcAn (PEcAn#NLDAS)

PEcAn (PEcAn#CURNCEP)

PEcAn (PEcAn#GLDAS)

PEcAn (PEcAn#GFDL)

PEcAn (PEcAn#BIOCRO)

PEcAn (PEcAn#CLM)

PEcAn (PEcAn#GDAY)

PEcAn (PEcAn#JULES)

PEcAn (PEcAn#LPJ-GUESS)

PEcAn (PEcAn#MAAT)

PEcAn (PEcAn#MAESPA)

PEcAn (PEcAn#PRELES)

   
PlantCV (terra.plantcv)ExtractorExtract plant height, area, and color distribution from photographs.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-plantcv/browseYan Liu
Civil & Environmental Engineering



 

Body of Water Detector (ncsa.image.ponddetect)

ExtractorLand coverage, extract locations of bodies of water from satellite data.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-maps/browse/feature_detection
GI IdentificationExtractor  
Human Preference Score (ncsa.image.humanpref)ExtractorAssign a model derived human preference score to a given image of an urban environment.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-
plantcv
maps/browse/humanpref
Yan Liu
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Civil & Environmental EngineeringBody of Water Detector

Route Greenness (ncsa.

image

xml.

ponddetect

greenindexroute)

Extractor
 
Derive the green index of a city route.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-maps/browse/
feature_detectionAnkit RaiGI Identification
greenroute
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Social Media GI PreferencesExtractor  
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 Human Preference Score
Stanford CoreNLP - Sentiment (ncsa.
image
nlp.
humanpref
SNLPSentiment)Extractor
 
Assign a sentiment score to a piece of text.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-
maps
nlp/browse/SNLP/
humanpref
SNLPSentimentExtractor
TUV TriaxusExtractor  
 Route Greenness
Social Science & Humanities













Bertillon Card Cell Extractor (ncsa.
xml
image.
greenindexroute
dmp)Extractor
 
Extract table cells from a Bertillon Card.https://opensource.ncsa.illinois.edu/bitbucket/projects/
CATS
DEBOD/repos/extractors-
maps/browse/greenroute
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 Social Media GI PreferencesExtractor  
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Stanford CoreNLP - Sentiment (ncsa.nlp.SNLPSentiment)Extractor 
debod
Census Form Cell Extractor (census-section-segmentor) ExtractorExtract table cells from a 1930s Census form.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-
nlp
cv/browse/
SNLP/SNLPSentimentExtractor
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 TUV TriaxusExtractor  
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Social Science & Humanities
Bertillon Card Cell
census
Handwritten Decimals Extractor (ncsa.image.
dmp
sphog.debod)Extractor
 
Extract handwritten decimal values from an image.https://opensource.ncsa.illinois.edu/bitbucket/projects/DEBOD/repos/extractors-
debodCensus Form Cell Extractor (census-section-segmentor) Extractor 
handwrittendecimals
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Killed Photos (ncsa.image.iarp_remove_circle)ExtractorIdentify depression era photos "killed" by Farm Security Administration director Roy Stryker, indicated by a hole punch in the image.https://opensource.ncsa.illinois.edu/bitbucket/projects/
CATS
IARP/repos/
extractors-cv
image_fetcher/browse/
census
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Handwritten Decimals Extractor
extractors/remove_circleMarcus Slavenas
Mean Grey (ncsa.
image
cv.
sphog.debod
meangrey)Extractor
 
Mean grey values of black and white photos.https://opensource.ncsa.illinois.edu/bitbucket/projects/
DEBOD
IARP/repos/
extractors-handwrittendecimals
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image_fetcher/browse/extractors/mean_greyMarcus Slavenas
Movie Slice (ncsa.movieslice)Extractor https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-movieslice/browse
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Person Detector (person-detector)Extractor
 
Extract locations of people in an image.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-person-detector
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Person Tracker (ncsa.person-tracker)Extractor
 
Extract locations and paths of people moving in videos.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-person-tracking
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Video Analytics Toolbox (ncsa.cinemetrics_batch)Extractor
 
Extract shot descriptors from videos.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-lsva-integrated/browse
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Biology, Genomics, MedicineFSL (mri2mesh)Extractor https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-mri/browse/mri2meshMarcus Slavenas
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Glomeruli (ncsa.msc.diagnosis)Extractor
 
Extract glomeruli from Kidney biopsy images.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-msc/browse/Kidney
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General

Domain

Tool

TypeDescription                                     RepositoriesContact
Deployed?

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

General

Calibre (ebook-converter)ConverterConvert e-books to a number of document formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-ebook-convert/browse 
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CMU Sphinx (ncsa.audio.speech2text)

ExtractorAudio recognition to extract text for speech within audio.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-core/browse/audio/speech2text
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Daffodil (daffodil)ConverterConvert formats with a provided DFDL schema to XML.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-daffodil/browseKenton McHenry
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DBPedia (ncsa.dbpedia)ExtractorFind and define named entities within the given text.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-dbpedia/browse
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FFmpeg (ffmpeg)ConverterConvert between a large number of video formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-ffmpeg/browse
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FLAC (flac)ConverterConvert to and from the FLAC format from other audio formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-flac/browse
 
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Ghostscript (ghostscript)ConverterConvert between document formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-ghostscript/browse
 
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htmldoc (htmldoc)ConverterConvert HTML to a number of document formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-htmldoc/browseKenton McHenry
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ImageMagick (ImageMagick)ConverterConvert between a large number of image formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-imagemagick/browseKenton McHenry
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ImageMagick (ncsa.image.metadata)ExtractorPull available EXIF image metadata from a given image.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-core/browse/image/metadata
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Kabeja (kabeja)ConverterConvert between a handful of 3D and image formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-kabeja/browse
 
 
 

OpenCV - Faces (ncsa.cv.faces)

ExtractorFind faces in an image and return their locations.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/extractors-opencv/extractors-opencv-facesKenton McHenry
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OpenCV - Eyes (ncsa.cv.eyes)

ExtractorFind eyes in an image and return their locations.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/extractors-opencv/extractors-opencv-eyesKenton McHenry
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OpenCV - Closeups (ncsa.cv.closeups)

ExtractorDetermine whether an image is a closeup of a person or not.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/extractors-opencv/extractors-opencv-closeupsKenton McHenry
  •   

OpenCV - Profiles (ncsa.cv.profiles)

ExtractorFind human face profiles in an image and return their locations.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/extractors-opencv/extractors-opencv-profilesKenton McHenry
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  •   
Langid (ncsa.nlp.simplelanguage)ExtractorIdentify the language of the given text.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-nlp/browse/SimpleLanguage
 
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LibreOffice (unoconv)ConverterConvert to and from a variety of document formats.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-unoconv/browse
 
Bing Zhang
NLTK - Summary (ncsa.nlp.simplesummary)ExtractorSummarize a body of text.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-nlp/browse/SimpleSummary
 
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Siegfried (siegfried)ExtractorExtract information about a given file relevant to identifying its type and validating its format.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-siegfried/browse
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Stanford CoreNLP (ncsa.nlp.SNLP)ExtractorNatural Language Process extractions such as parts of speech, named entities, langauge, etc.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-nlp/browse/SNLP/SNLPExtractor 
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Tesseract (ncsa.image.ocr)ExtractorObject Character Recognition (OCR) to extract text from images containing text.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/extractors-tesseractKenton McHenry
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Tika (ncsa.nlp.tika)ExtractorDocument extractions such as language identification, ...https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-nlp/browse/tika
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txt2html (txt2html)ConverterConvert text documents to HTML.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-txt2html/browseKenton McHenry
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Versus - Color Distribution (ncsa.versus.image)ExtractorGenerate a distribution of color values within an image to be used for comparing how similar two images are.https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-versus/browse
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VLFeat (ncsa.image.caltech101)

ExtractorClassify images as to whether they contain objects from the Caltech101 dataset (e.g. people, airplanes, motorcycles, cougars, ...).https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/extractors-vlfeatKenton McHenry
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Zip (zip)ConverterUnzip zip archives.https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-zip/browse
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https://opensource.ncsa.illinois.edu/confluence/display/BD/Transformations (Under development, Being Refactored)