Scientific
Domain | Tool | Type |
---|
Description |
---|
Repositories | Contact | |||
---|---|---|---|---|
Hydrology
| Advection Diffusion | Solve a general advection-dispersion equation. |
Chemical Mean Age | Extractor | Determine the mean age of chemical constituents with inputs of chemical dynamics. |
Hydrology
Historical RiverDocument 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 | ||
GDAL (ncsa.geo.tiffExtractor) | Extractor |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-geo/browse | |
GDAL (ncsa.image.geotiff) |
Extractor |
pygeoprocessing
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-geotiff/browse |
Historical River Extractor (ncsa.cv.river) | Extractor | Extract the river networks from the ancient hand-drawing maps and compare them with current river networks | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-cv/browse/river | |
Normalized Difference Vegetation Index (ncsa.arcgis.landsat7mosaic) |
Extractor |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-bd-cz/browse/ndviextractor | ||
River Chi Index | Extractor | Identify the river dynamics in a river basin and evaluate human activities' influences through Chi index in the streams. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-bd-cz/browse/chi-analysis | ||||
River Sinuosity | Extractor | Study the maturity and equilibrium conditions of a stream through the sinuosity index. | ||
Soil Moisture Change | Extractor | Determine role of hydraulic redistribution in AZ (riparian site / upland site) by studying soil moisture change throughout different seasons. | Esther Lee (estherl2010@gmail.com) | |
Species Classifier | Extractor | SAM 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) | Extractor | Identify 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 |
Biology
requests
wheel
Topographic Depressions | Extractor | Identify topographic depressions (TDs) and their distribution on landscape (Number, location, area, volume of TDs). | https://github.com/HydroComplexity/TDI | ||
Tree Delineation | Converter | Tree-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 distribution. | https://opensource.ncsa.illinois.edu/bitbucket/projects/BD/repos/ir-lidar/browse | ||
Valley Safety Zones | Extractor | Estimate submerging areas and water depths under extreme floods and map the safety zones in a river valley. | |||
Vegetation Indices | Extractor | Calculating vegetation indices such as NDVI and Surface Temperature from Landsat 7 and 8 satellite data. | Debsunder Dutta (debsunderdutta@gmail.com) leaving in July 2016 | ||
Ecology
| netcdf (ncdump) | Converter | Convert from binary netcdf to text. | https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-ncdump/browse | |
---|---|---|---|---|---|
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 | ||
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 | ||
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 |
Green Infrastructure
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 | |
PEcAn (PEcAn#Sipnet) | Converter | 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 | |
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) | Extractor | Extract plant height, area, and color distribution from photographs. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
plantcv/browse |
Yan Liu | |
Civil & Environmental Engineering
| Body of Water Detector (ncsa.image.ponddetect) |
---|
Extractor | Land 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 Identification | Extractor | |||
Human Preference Score (ncsa.image.humanpref) |
Extractor | Assign a model derived human preference score to a given image of an urban environment. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-maps/browse/humanpref |
Route Greenness (ncsa.xml.greenindexroute |
) | Extractor | Derive the green index of a city route. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-maps/browse/greenroute | ||
Social Media GI Preferences | Extractor |
Stanford CoreNLP - Sentiment (ncsa.nlp.SNLPSentiment) | Extractor | Assign a sentiment score to a piece of text. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
nlp/browse |
/SNLP/SNLPSentimentExtractor | |
TUV Triaxus | Extractor |
Social Science & Humanities | Bertillon Card Cell Extractor (ncsa.image.dmp) | Extractor | Extract table cells from a Bertillon Card. | https://opensource.ncsa.illinois.edu/bitbucket/projects/DEBOD/repos/extractors-debod | |
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Census Form Cell Extractor (census-section-segmentor) | Extractor | Extract table cells from a 1930s Census form. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
cv/browse/ |
Tool
census |
General
Handwritten Decimals Extractor (ncsa.image.sphog.debod) | Extractor | Extract handwritten decimal values from an image. | https://opensource.ncsa.illinois.edu/bitbucket/projects/DEBOD/repos/extractors-handwrittendecimals | |
Killed Photos (ncsa.image.iarp_remove_circle) | Extractor | Identify 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/IARP/repos/image_fetcher/browse/extractors/remove_circle | Marcus Slavenas |
Mean Grey (ncsa.cv.meangrey) | Extractor | Mean grey values of black and white photos. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/ |
IARP/repos/image_fetcher/browse/extractors |
/ |
mean_grey | Marcus Slavenas | ||
Movie Slice (ncsa.movieslice) | Extractor | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
movieslice/browse |
Person Detector (person-detector |
) | Extractor |
Extract locations of people in an image. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
person-detector | |
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 | |
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 |
Biology, Genomics, Medicine | FSL (mri2mesh) | Extractor |
---|
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
mri/browse/ |
mri2mesh |
Marcus Slavenas |
Glomeruli (ncsa. |
msc. |
diagnosis) | Extractor |
Extract glomeruli from Kidney biopsy images. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
msc/browse/ |
VLFeat (ncsa.image.caltech101)
Kidney |
General
Domain | Tool | Type | Description | Repositories | Contact |
---|---|---|---|---|---|
|
General | Calibre (ebook-converter) | Converter | Convert e-books to a number of document formats. | https://opensource.ncsa.illinois.edu/bitbucket/projects/ |
---|
POL/repos/ |
converters-ebook- |
convert/browse |
CMU Sphinx (ncsa.audio.speech2text) |
Extractor | Audio recognition to extract text for speech within audio. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors-core/browse/audio/speech2text |
Daffodil (daffodil) | Converter | Convert formats with a provided DFDL schema to XML. | https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-daffodil/browse | Kenton McHenry |
DBPedia (ncsa.dbpedia) | Extractor | Find and define named entities within the given text. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
dbpedia/browse |
Natural Language Toolkit (NLTK) for Python, NLTK Data or at least:
FFmpeg (ffmpeg) | Converter | Convert between a large number of video formats. | https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-ffmpeg/browse | |
FLAC (flac) | Converter | Convert to and from the FLAC format from other audio formats. | https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-flac/browse | |
Ghostscript (ghostscript) | Converter | Convert between document formats |
. | https://opensource.ncsa.illinois.edu/bitbucket/projects/ |
POL/repos/ |
converters- |
ghostscript/browse |
htmldoc (htmldoc) | Converter | Convert HTML to a number of document formats. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/ |
POL/repos/ |
converters- |
htmldoc/browse | Kenton |
McHenry | ||||
ImageMagick (ImageMagick) | Converter | Convert between a large number of image formats. | https://opensource.ncsa.illinois.edu/bitbucket/projects/POL/repos/converters-imagemagick/browse | Kenton McHenry |
ImageMagick (ncsa.image.metadata) | Extractor | Pull available EXIF image metadata from a given image. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
core/browse |
/image/metadata | ||
Kabeja (kabeja) | Converter | Convert 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) | Extractor | Find faces in an image and return their locations. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
cv/browse |
/extractors-opencv/extractors-opencv-faces | Kenton McHenry | ||
OpenCV - Eyes (ncsa.cv.eyes) | Extractor | Find eyes in an image and return their locations. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
cv/browse/ |
extractors-opencv/extractors-opencv-eyes | Kenton McHenry | ||
OpenCV - Closeups (ncsa.cv.closeups) | Extractor | Determine 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-closeups | Kenton McHenry | |
OpenCV - Profiles (ncsa.cv.profiles) | Extractor | Find 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-profiles | Kenton McHenry | |
Langid (ncsa.nlp.simplelanguage) | Extractor | Identify the language of the given text. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
nlp/browse/ |
SimpleLanguage | ||||
LibreOffice (unoconv) | Converter | Convert 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) | Extractor | Summarize a body of text. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
nlp/browse/ |
SimpleSummary |
Siegfried (siegfried) | Extractor | Extract 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 |
Stanford CoreNLP (ncsa.nlp.SNLP) |
Extractor | Natural 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 |
Tesseract (ncsa. |
image. |
ocr) |
Extractor | Object Character Recognition (OCR) to extract text from images containing text. | https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
cv/browse/ |
extractors-tesseract | Kenton McHenry | |
Tika (ncsa.nlp.tika) | Extractor | Document extractions such as language identification, ... |
https://opensource.ncsa.illinois.edu/bitbucket/projects/CATS/repos/extractors- |
nlp/browse/ |
tika |
txt2html (txt2html) | Converter | Convert text documents to HTML. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/ |
POL/repos/ |
converters- |
txt2html/browse |
Kenton McHenry |
Versus - Color Distribution (ncsa.versus.image) | Extractor | Generate 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 |
VLFeat (ncsa.image.caltech101) | Extractor | Classify 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-vlfeat | Kenton McHenry | |
Zip (zip) | Converter | Unzip zip archives. |
https://opensource.ncsa.illinois.edu/bitbucket/projects/ |
POL/repos/ |
converters- |
zip/browse |
https://opensource.ncsa.illinois.edu/confluence/display/BD/ExtractorsTransformations (Under development, Being Refactored)