Use Cases Enviro - Revision history

WikiSysop at 13:07, 8 June 2018

2018-06-08T13:07:23Z

← Older revision		Revision as of 15:07, 8 June 2018
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	Search for eDNA is also working. This is provided as preparationType, so now one can search for all preparation types (also leaf, muscle, gDNA etc.)		Search for eDNA is also working. This is provided as preparationType, so now one can search for all preparation types (also leaf, muscle, gDNA etc.)

	~~Krone~~ file is now embedded and displayed in the tab "Visualization" right to “Taxon List”.		Krona file is now embedded and displayed in the tab "Visualization" right to “Taxon List”.

	==Suggestion List==		==Suggestion List==

WikiSysop: /* gDNA, culture, specimen, abiotic eSample, eDNA */

2017-09-29T07:16:26Z

gDNA, culture, specimen, abiotic eSample, eDNA

← Older revision		Revision as of 09:16, 29 September 2017
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	This is a complex parent-child relation. The gDNA points to the culture. The specimen also points to the culture. Both specimen and culture points to the eSample. In addition the eSample is the mother of hundreds of further cultures, specimens, gDNA samples and of course a eDNA sample.		This is a complex parent-child relation. The gDNA points to the culture. The specimen also points to the culture. Both specimen and culture points to the eSample. In addition the eSample is the mother of hundreds of further cultures, specimens, gDNA samples and of course a eDNA sample.

	Real example: http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=DB+8219_D03_030&collectioncode=DNA+Bank&institutioncode=B		Real example (work in progress): http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=DB+8219_D03_030&collectioncode=DNA+Bank&institutioncode=B

	=eSample from biotic environment=		=eSample from biotic environment=

WikiSysop: /* eSample from biotic environment */

2017-09-26T13:18:48Z

eSample from biotic environment

← Older revision		Revision as of 15:18, 26 September 2017
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	In comparison to the abiotic eSample this one has a main taxon, e.g. the animal or plant which serves as the environment. This makes a difference in search and display.		In comparison to the abiotic eSample this one has a main taxon, e.g. the animal or plant which serves as the environment. This makes a difference in search and display.

	Real example: http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=~~AA1BN60~~&collectioncode=~~Birds~~&institutioncode=USNM		Real example: http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=AE4SG27&collectioncode=Mammals&institutioncode=USNM

	=eDNA or eSample from ancient material=		=eDNA or eSample from ancient material=

WikiSysop at 14:09, 23 August 2017

2017-08-23T14:09:12Z

← Older revision		Revision as of 16:09, 23 August 2017
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	=eDNA or eSample from ancient material=		=eDNA or eSample from ancient material=
	Coming soon.		Coming soon.


			'''Back to [[Use Case Collection]]'''

WikiSysop: /* eDNA from abiotic eSample */

2017-03-15T10:38:15Z

eDNA from abiotic eSample

← Older revision		Revision as of 12:38, 15 March 2017
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	The raw ABCD file can be retrieved by clicking on the links to the left.		The raw ABCD file can be retrieved by clicking on the links to the left.

	Search for eSamples is now working~~. Not yet working for different prepatationTypes (eDNA, aDNA, gDNA)~~.		Search for eSamples is now working.

	Search for eDNA is also working. This is provided as preparationType, so now one can search for all preparation types (also leaf, muscle etc.)		Search for eDNA is also working. This is provided as preparationType, so now one can search for all preparation types (also leaf, muscle, gDNA etc.)

	Krone file is now embedded and displayed in the tab "Visualization" right to “Taxon List”.		Krone file is now embedded and displayed in the tab "Visualization" right to “Taxon List”.
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	* Do the same thing with DwC-A		* Do the same thing with DwC-A
	* Krona file currently provided as sequencing-reference, term does not fit very well yet		* Krona file currently provided as sequencing-reference, term does not fit very well yet


	=gDNA, culture, specimen, abiotic eSample, eDNA=		=gDNA, culture, specimen, abiotic eSample, eDNA=

WikiSysop at 09:43, 15 March 2017

2017-03-15T09:43:55Z

← Older revision		Revision as of 11:43, 15 March 2017
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	Search for eSamples is now working. Not yet working for different prepatationTypes (eDNA, aDNA, gDNA).		Search for eSamples is now working. Not yet working for different prepatationTypes (eDNA, aDNA, gDNA).

			Search for eDNA is also working. This is provided as preparationType, so now one can search for all preparation types (also leaf, muscle etc.)

			Krone file is now embedded and displayed in the tab "Visualization" right to “Taxon List”.

	==Suggestion List==		==Suggestion List==
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	'''Next:'''		'''Next:'''
	* Include the Krona example: http://www.ggbn.org/ggbn_portal/documents/krona.html
	** Will place it in a separate tab right to “Taxon List”. How should I name the tab? Since others might use other graph tools than Krona it should be named generically.
	* Add the Dryad resource for the raw data		* Add the Dryad resource for the raw data
	* Add Loan information for the enviro sample		* Add Loan information for the enviro sample
	* Do the same thing with DwC-A		* Do the same thing with DwC-A
	* ~~Improve the portal search~~		* Krona file currently provided as sequencing-reference, term does not fit very well yet
	** search for eDNA not yet ~~working~~

	=gDNA, culture, specimen, abiotic eSample, eDNA=		=gDNA, culture, specimen, abiotic eSample, eDNA=

WikiSysop: /* eSample from biotic environment */

2017-03-14T14:18:44Z

eSample from biotic environment

← Older revision		Revision as of 16:18, 14 March 2017
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	In comparison to the abiotic eSample this one has a main taxon, e.g. the animal or plant which serves as the environment. This makes a difference in search and display.		In comparison to the abiotic eSample this one has a main taxon, e.g. the animal or plant which serves as the environment. This makes a difference in search and display.

	Real example: http://~~localhost~~/ggbn_sandbox/search/record?unitID=AA1BN60&collectioncode=Birds&institutioncode=USNM		Real example: http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=AA1BN60&collectioncode=Birds&institutioncode=USNM

	=eDNA or eSample from ancient material=		=eDNA or eSample from ancient material=
	Coming soon.		Coming soon.

WikiSysop: /* eDNA from abiotic eSample */

2017-03-07T19:21:15Z

eDNA from abiotic eSample

← Older revision		Revision as of 21:21, 7 March 2017
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	Stable test example: http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=DB+e200000&collectioncode=DNA+Bank&institutioncode=B		Stable test example: http://sandbox.ggbn.org/ggbn_sandbox/search/record?unitID=DB+e200000&collectioncode=DNA+Bank&institutioncode=B
	The raw ABCD file can be retrieved by clicking on the links to the left.		The raw ABCD file can be retrieved by clicking on the links to the left.

			Search for eSamples is now working. Not yet working for different prepatationTypes (eDNA, aDNA, gDNA).

	==Suggestion List==		==Suggestion List==

WikiSysop: /* Suggestion List */

2017-03-07T19:20:22Z

Suggestion List

← Older revision		Revision as of 21:20, 7 March 2017
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	==Suggestion List==		==Suggestion List==
	[[File:SuggestionList Enviro.jpg\|thumb\|600px\|Search for "Achnanthidium" finds genomic and environmental samples]] Search results for a taxon that occurrs in an environmental sample should be clearly distinguished from genomic DNA samples. Solved by the following phrase: Mame 'xyz' appears in environmental sample(s) or eDNA		[[File:SuggestionList Enviro.jpg\|thumb\|600px\|Search for "Achnanthidium" finds genomic and environmental samples]] Search results for a taxon that occurrs in an environmental sample should be clearly distinguished from genomic DNA samples. Solved by the following phrase: Mame 'xyz' appears in environmental sample(s) or eDNA. Search for all taxa occuring in the sample is solved. The proper display in the hitlist is not yet solved for biotic eSamples.



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	* Do the same thing with DwC-A		* Do the same thing with DwC-A
	* Improve the portal search		* Improve the portal search
	** scientific name in the hitlist makes no sense - done, see screenshot
	** search for ALL names - done, see screenshot
	** search for eDNA not yet working		** search for eDNA not yet working
	** search for eSamples - done

	=gDNA, culture, specimen, abiotic eSample, eDNA=		=gDNA, culture, specimen, abiotic eSample, eDNA=

WikiSysop: /* Suggestion List */

2017-03-07T18:45:56Z

Suggestion List

← Older revision		Revision as of 20:45, 7 March 2017
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	* Improve the portal search		* Improve the portal search
	** scientific name in the hitlist makes no sense - done, see screenshot		** scientific name in the hitlist makes no sense - done, see screenshot
	** search for ALL names ~~not yet working~~ - done, see screenshot		** search for ALL names - done, see screenshot
	** search for eDNA not yet working		** search for eDNA not yet working
	** search for eSamples ~~not yet working~~		** search for eSamples - done

	=gDNA, culture, specimen, abiotic eSample, eDNA=		=gDNA, culture, specimen, abiotic eSample, eDNA=