Difference between revisions of "ISSS608 2017-18 T3 Assign Chan En Ying Grace"
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[[ISSS608_2017-18_T3_Assign_Chan_En_Ying_Grace|<b><font size="3"><font color="#000000">Background</font></font></b>]] | [[ISSS608_2017-18_T3_Assign_Chan_En_Ying_Grace|<b><font size="3"><font color="#000000">Background</font></font></b>]] | ||
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− | [[ | + | [[ISSS608_2017-18_T3_Assign_Chan_En_Ying_Grace_Methodology|<b><font size="3"><font color="#000000">Methodology</font></font></b>]] |
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− | [[ | + | [[ISSS608_2017-18_T3_Assign_Chan_En_Ying_Grace_Did Rose Pipit kick the bucket?|<b><font size="3"><font color="#000000">Did Rose Pipit kicketh the bucket?</font></font></b>]] |
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− | [[ | + | [[ISSS608_2017-18_T3_Chan_En_Ying_Grace_Which song belongs to thee?| <b><font size="3"><font color="#000000">Which song belongs to thee?</font></font></b>]] |
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− | [[ | + | [[ISSS608_2017-18_T3_Chan_En_Ying_Grace_Conclusion| <b><font size="3"><font color="#000000">Conclusion</font></font></b>]] |
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<br/> | <br/> | ||
− | ==<font size="5"><font color="#000000">'''Overview'''</font></font>== | + | ==<font size="5"><font color="#000000">'''Overview (Mini-Challenge 1)'''</font></font>== |
− | In 2017, it was suggested that the Kasios Furniture manufacturing company may have been a primary contributor to the apparent reduction of the number of nesting pairs of the Rose-Crested Blue Pipit. Kasios supposedly used the banned substance Methylosmolene in their manufacturing process. | + | In 2017, it was suggested that the Kasios Furniture manufacturing company may have been a primary contributor to the apparent reduction of the number of nesting pairs of the Rose-Crested Blue Pipit. Kasios supposedly used the banned substance Methylosmolene in their manufacturing process. However, process waste in the northeast region of the Preserve and Methylosmolene was detected in their smokestack emissions. |
− | Kasios now claims that the analysis was flawed. To combat these conclusions, Kasios has launched their own “investigation” into the Pipit situation, and they are now reporting that there are plenty of Rose-crested Blue Pipits happily living and nesting in the Preserve. To back up this claim, they have provided a set of Pipit bird calls, recently recorded across the Preserve, with locations of where they were recorded. Clearly, they claim, the Pipits are a thriving population, and Kasios will provide even more supporting evidence as their investigation proceeds | + | Kasios now claims that the analysis was flawed. To combat these conclusions, Kasios has launched their own “investigation” into the Pipit situation, and they are now reporting that there are plenty of Rose-crested Blue Pipits happily living and nesting in the Preserve. To back up this claim, they have provided a set of Pipit bird calls, recently recorded across the Preserve, with locations of where they were recorded. Clearly, they claim, the Pipits are a thriving population, and Kasios will provide even more supporting evidence as their investigation proceeds. |
− | + | The Pangera Ornithology Conservation Society is at their wit’s end at what to do about this turn of events. The townsfolk and Preserve rangers seem satisfied that the recordings back up Kasios’ claims. Mistford College does not have another Pipit expert they can call upon for help. But, they do have a collection of bird calls from the Preserve that has been vetted by various ornithology groups as having accurate identifications. They have heard that new techniques from machine learning and visual analytics can be applied, where these calls could be classified and analyzed using these technologies. | |
==<font size="5"><font color="#000000">'''Research Questions'''</font></font>== | ==<font size="5"><font color="#000000">'''Research Questions'''</font></font>== | ||
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Using R programming, techniques from visual and geospatial analytics will be applied to answer the following research questions: | Using R programming, techniques from visual and geospatial analytics will be applied to answer the following research questions: | ||
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==<font size="5"><font color="#000000">'''Data Sources'''</font></font>== | ==<font size="5"><font color="#000000">'''Data Sources'''</font></font>== | ||
− | The following lists the data | + | The following lists the data attributes used for the analysis. The data is obtained from http://vacommunity.org/VAST+Challenge+2018+MC1. |
− | <div style="margin:0px; padding: 2px; background: # | + | <div style="margin:0px; padding: 2px; background: #E6E6FA; font-family: Arial; border-radius: 1px; text-align:left"> |
{| class="wikitable" style="background-color:#FFFFFF;" width="100%" | {| class="wikitable" style="background-color:#FFFFFF;" width="100%" | ||
|- | |- | ||
| | | | ||
+ | <b>No.</b> | ||
+ | || | ||
+ | <b>Name</b> | ||
+ | || | ||
+ | <b>Attributes</b> | ||
+ | || | ||
+ | <b>Format</b> | ||
+ | || | ||
+ | <b>No. of Records</b> | ||
+ | |- | ||
+ | | | ||
1. | 1. | ||
|| | || | ||
The Lekagul Roadway Map | The Lekagul Roadway Map | ||
|| | || | ||
− | + | Class : RasterLayer | |
+ | <br>Dimensions : 200, 200, 40000 (nrow, ncol, ncell) | ||
+ | <br>Resolution : 1, 1 (x, y) | ||
+ | <br>Extent : 0, 200, 0, 200 (xmin, xmax, ymin, ymax) | ||
+ | <br>Coord. ref. : NA | ||
+ | <br>Names : Lekagul_Roadways_2018 | ||
+ | <br>Values : 0, 255 (min, max) | ||
+ | || | ||
+ | BMP | ||
+ | || | ||
+ | Single Layer | ||
|- | |- | ||
| | | | ||
2. | 2. | ||
|| | || | ||
− | Metadata of | + | Metadata of Bird Call Collection |
|| | || | ||
− | + | File ID | |
+ | <br>English_name | ||
+ | <br>Vocalization_type | ||
+ | <br>Quality | ||
+ | <br>Time | ||
+ | <br>Date | ||
+ | <br>X,Y Coordinates | ||
+ | || | ||
+ | CSV | ||
+ | || | ||
+ | 2081 Birds; 19 Species | ||
|- | |- | ||
| | | | ||
3. | 3. | ||
|| | || | ||
− | + | Test Birds from Kasios | |
|| | || | ||
− | + | Bird ID | |
+ | <br>X,Y Coordinates | ||
+ | || | ||
+ | CSV | ||
+ | || | ||
+ | 15 Birds | ||
|- | |- | ||
| | | | ||
4. | 4. | ||
|| | || | ||
− | + | Audio of Bird Call Collection | |
|| | || | ||
− | + | Name of Audio File (containing species & bird ID) | |
+ | <br> MP3 Audio of Bird Call/Song | ||
+ | <br> Acoustic Parameters, extracted using analyzeFolder() include: | ||
+ | * duration | ||
+ | * voiced | ||
+ | * ampl_mean, ampl_median, ampl_sd | ||
+ | * amplVoiced_mean, amplVoiced_median, amplVoiced_sd | ||
+ | * dom_mean, dom_median, dom_sd | ||
+ | * entropy_mean, entropy_median, entropy_sd | ||
+ | * f1_freq_mean, f1_freq_median, f1_freq_sd | ||
+ | * f1_width_mean, f1_width_median, f1_width_sd | ||
+ | * f2_freq_mean, f2_freq_median, f2_freq_sd | ||
+ | * f2_width_mean, f2_width_median, f2_width_sd | ||
+ | * f3_freq_mean, f3_freq_median, f3_freq_sd | ||
+ | * f3_width_mean, f3_width_median, f3_width_sd | ||
+ | * harmonics_mean, harmonics_median, harmonics_sd | ||
+ | * HNR_mean, HNR_median, HNR_sd | ||
+ | * meanFreq_mean, meanFreq_median, meanFreq_sd | ||
+ | * peakFreq_mean, peakFreq_median, peakFreq_sd | ||
+ | * pitch_mean, pitch_median, pitch_sd | ||
+ | * pitchAutocor_mean, pitchAutocor_median, pitchAutocor_sd | ||
+ | * pitchSpec_mean, pitchSpec_median, pitchSpec_sd | ||
+ | * quartile25_mean, quartile25_median, quartile25_sd | ||
+ | * quartile50_mean, quartile50_median, quartile50_sd | ||
+ | * quartile75_mean, quartile75_median, quartile75_sd | ||
+ | * specSlope_mean, specSlope_median, specSlope_sd | ||
+ | || | ||
+ | MP3 | ||
+ | || | ||
+ | 2081 Recording | ||
+ | |- | ||
|- | |- | ||
| | | | ||
5. | 5. | ||
|| | || | ||
− | + | Audio of Test Birds from Kasios | |
+ | || | ||
+ | Name of Audio File (with Bird ID) | ||
+ | <br>MP3 Audio of Bird Call/Song | ||
+ | <br> Acoustic Parameters, extracted using analyzeFolder() include: | ||
+ | * duration | ||
+ | * voiced | ||
+ | * ampl_mean, ampl_median, ampl_sd | ||
+ | * amplVoiced_mean, amplVoiced_median, amplVoiced_sd | ||
+ | * dom_mean, dom_median, dom_sd | ||
+ | * entropy_mean, entropy_median, entropy_sd | ||
+ | * f1_freq_mean, f1_freq_median, f1_freq_sd | ||
+ | * f1_width_mean, f1_width_median, f1_width_sd | ||
+ | * f2_freq_mean, f2_freq_median, f2_freq_sd | ||
+ | * f2_width_mean, f2_width_median, f2_width_sd | ||
+ | * f3_freq_mean, f3_freq_median, f3_freq_sd | ||
+ | * f3_width_mean, f3_width_median, f3_width_sd | ||
+ | * harmonics_mean, harmonics_median, harmonics_sd | ||
+ | * HNR_mean, HNR_median, HNR_sd | ||
+ | * meanFreq_mean, meanFreq_median, meanFreq_sd | ||
+ | * peakFreq_mean, peakFreq_median, peakFreq_sd | ||
+ | * pitch_mean, pitch_median, pitch_sd | ||
+ | * pitchAutocor_mean, pitchAutocor_median, pitchAutocor_sd | ||
+ | * pitchSpec_mean, pitchSpec_median, pitchSpec_sd | ||
+ | * quartile25_mean, quartile25_median, quartile25_sd | ||
+ | * quartile50_mean, quartile50_median, quartile50_sd | ||
+ | * quartile75_mean, quartile75_median, quartile75_sd | ||
+ | * specSlope_mean, specSlope_median, specSlope_sd | ||
+ | || | ||
+ | MP3 | ||
|| | || | ||
− | + | 15 Recording | |
|- | |- | ||
|} | |} | ||
</div> | </div> | ||
<br> | <br> |
Latest revision as of 10:01, 2 July 2018
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Overview (Mini-Challenge 1)
In 2017, it was suggested that the Kasios Furniture manufacturing company may have been a primary contributor to the apparent reduction of the number of nesting pairs of the Rose-Crested Blue Pipit. Kasios supposedly used the banned substance Methylosmolene in their manufacturing process. However, process waste in the northeast region of the Preserve and Methylosmolene was detected in their smokestack emissions.
Kasios now claims that the analysis was flawed. To combat these conclusions, Kasios has launched their own “investigation” into the Pipit situation, and they are now reporting that there are plenty of Rose-crested Blue Pipits happily living and nesting in the Preserve. To back up this claim, they have provided a set of Pipit bird calls, recently recorded across the Preserve, with locations of where they were recorded. Clearly, they claim, the Pipits are a thriving population, and Kasios will provide even more supporting evidence as their investigation proceeds.
The Pangera Ornithology Conservation Society is at their wit’s end at what to do about this turn of events. The townsfolk and Preserve rangers seem satisfied that the recordings back up Kasios’ claims. Mistford College does not have another Pipit expert they can call upon for help. But, they do have a collection of bird calls from the Preserve that has been vetted by various ornithology groups as having accurate identifications. They have heard that new techniques from machine learning and visual analytics can be applied, where these calls could be classified and analyzed using these technologies.
Research Questions
Using R programming, techniques from visual and geospatial analytics will be applied to answer the following research questions:
1. |
What are the patterns, trends and anomalies across the bird species in the Preserve over the time of collection? |
2. |
What happened to the state of the Rose Pipits? Are Pipits actually thriving across the Preserve? |
3. |
Does the set of bird calls supplied by Kasios support the claim of Pipits being found across the Preserve? |
Data Sources
The following lists the data attributes used for the analysis. The data is obtained from http://vacommunity.org/VAST+Challenge+2018+MC1.
No. |
Name |
Attributes |
Format |
No. of Records |
1. |
The Lekagul Roadway Map |
Class : RasterLayer
|
BMP |
Single Layer |
2. |
Metadata of Bird Call Collection |
File ID
|
CSV |
2081 Birds; 19 Species |
3. |
Test Birds from Kasios |
Bird ID
|
CSV |
15 Birds |
4. |
Audio of Bird Call Collection |
Name of Audio File (containing species & bird ID)
|
MP3 |
2081 Recording |
5. |
Audio of Test Birds from Kasios |
Name of Audio File (with Bird ID)
|
MP3 |
15 Recording |