150810 ilts workshop_handson_presentation

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Introduction Hands-on of QGIS Introduction of open source softwares Hands-on for scientific data analysis using open source software Takayuki Nuimura 1,2 1 Chiba Institute of Science 2 OSGeo.JP ILTS, Hokkaido University (2015/08/10)

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Introduction Hands-on of QGIS Introduction of open source softwares

Hands-on for scientific data analysisusing open source software

Takayuki Nuimura1,2

1Chiba Institute of Science

2OSGeo.JP

ILTS, Hokkaido University (2015/08/10)

Introduction Hands-on of QGIS Introduction of open source softwares

Scientific computing is not special tool

Scientific computing (e.g. GIS, remote sensing) is not special toolsin earth science area.

http://www.the-cryosphere.net/highlight_articles.html

Introduction Hands-on of QGIS Introduction of open source softwares

Difficulty in scientific computing

High cost of commertial software

ArcGIS (390,000 yen)

MATLAB (295,000 yen)

SAS (620,000 yen), etc. . . .

Educational institute can use discount price. But it makescolaborative research with non-educational institute difficult.

Various file format of scientific data

GeoTIFF, Shapefile

netCDF, HDF

CSV, XML, etc. . . .

High learning cost for non-experienced researcher(e.g. graduate student).

Introduction Hands-on of QGIS Introduction of open source softwares

Work flow of this hands-on

1. Hands-on of open source GIS software (QGIS)1.1 Import various scientific data format1.2 Spatial analysis1.3 Data visuallization

2. Introduction of other open source softwares2.1 GDAL/OGR2.2 GMT2.3 R2.4 GRASS GIS

Introduction Hands-on of QGIS Introduction of open source softwares

QGIS

GUI based (Desktop) GIS

http://www.qgis.org/

ver. 2.10.1

Available data format

GeoTiff/Shapefile

netCDF (raster), HDF (raster)

CSV, KML, et al. . .

Introduction Hands-on of QGIS Introduction of open source softwares

Import various scientific data format

Case of standard GIS/RS format

GeoTiff

Raster (grid data)

http://www2.jpl.nasa.gov/srtm/

Shapefile

Vector (point, line, polygon)

http://www.glims.org/RGI/

(Nuimura et al., 2015)

Introduction Hands-on of QGIS Introduction of open source softwares

Import various scientific data format

=⇒DEMO

Introduction Hands-on of QGIS Introduction of open source softwares

Spatial analysis

=⇒DEMO

raster

1. Raster =⇒ Zonal statistics

2. View =⇒ Statistical summary

vector

1. Vector =⇒ Polygon centroid

2. Raster =⇒ Heatmap

Introduction Hands-on of QGIS Introduction of open source softwares

Data visuallization

=⇒DEMO

1. Project =⇒ New print composer

Introduction Hands-on of QGIS Introduction of open source softwares

GDAL/OGR

GIS library used by many of GIS (ArcGIS too)Command line tools

http://www.gdal.org/

ver. 2.0.0

Available data format

GeoTiff/Shapefile

netCDF (raster), HDF (raster)

CSV, KML, et al. . .GDAL/OGR site

Introduction Hands-on of QGIS Introduction of open source softwares

GMT

Map visuallization tool

http://gmt.soest.hawaii.edu/

ver. 5.1.2

Available data format

netCDF

CSV, GMT ascii, et al. . .

Introduction Hands-on of QGIS Introduction of open source softwares

R

Statistics programing language

http://cran.r-project.org/

Available data format

GeoTiff/Shapefile

netCDF, HDF

CSV, KML, et al. . .

Introduction Hands-on of QGIS Introduction of open source softwares

Reading HDF in R

library(rhdf5)hdf.filepath <- [path to hdf file]x <- as.numeric(h5read(hdf.filepath, "Data_40HZ/Geolocation/d_lon"))y <- as.numeric(h5read(hdf.filepath, "Data_40HZ/Geolocation/d_lat"))z <- as.numeric(h5read(hdf.filepath, "Data_40HZ/Elevation_Surfaces/d_elev"))t <- as.Date(as.POSIXct(h5read(hdf.filepath, "Data_40HZ/Time/d_UTCTime_40"),origin="2000-01-01", tz="GMT"))

Introduction Hands-on of QGIS Introduction of open source softwares

GRASS GIS

Various spatial function. Batch processing using bash/python

http://grass.osgeo.org/

ver. 7.0.1

Available data format

GeoTiff/Shapefile

netCDF (raster)

CSV, KML, et al. . .

Introduction Hands-on of QGIS Introduction of open source softwares

URL list of hands-on

Presentation slide file

Hands-on data

Software web site list

are listed in following URL.

http://bit.ly/ilts2015

References I

Nuimura, T., Sakai, A., Taniguchi, K., Nagai, H., Lamsal, D., Tsutaki, S., Kozawa, A., Hoshina, Y.,Takenaka, S., Omiya, S., Tsunematsu, K., Tshering, P., and Fujita, K. (2015). The gamdamglacier inventory: a quality-controlled inventory of asian glaciers. The Cryosphere,9(3):849–864.