genophenoenvo terraref-datasets issues

genophenoenvo / terraref-datasets

Repository for code and small datasets derived from the TERRA REF program

MIT License

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issues

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Questions about ontology annotation

#36 dlebauer closed 4 years ago
5
Clarify which canopy height measurements are needed for ML training data

#35 MagicMilly closed 4 years ago
1
Migrate data to CyVerse

#34 MagicMilly closed 4 years ago
1
Post new datasets with clear descriptions in metadata about dates, gdd values, and methods

#33 MagicMilly closed 4 years ago
4
Create look up table of cultivars from hapmap file and available trait data

#32 MagicMilly closed 4 years ago
1
Investigate discrepancies in flowering and flag leaf emergence times

#31 MagicMilly closed 4 years ago
2
Get a container w/ Tassel v5 on CyVerse

#30 dlebauer closed 4 years ago
2
Placeholder: Follow-up actions from meeting with David & Jeanette

#29 MagicMilly closed 4 years ago
1
Arrange meeting with Ab and Michael to discuss accessing TERRA-REF data and Follow-up Actions

#28 MagicMilly closed 4 years ago
1
Arrange meeting with Ryan and Kent to discuss GWAS and Follow-Up Actions

#27 MagicMilly closed 4 years ago
1
For GWAS, take average values for traits with duplicate entries

#26 MagicMilly closed 4 years ago
0
Perform GWAS analysis of sorghum data using tassel

#25 kshefchek closed 3 years ago
1
Create file with aggregated phenotype data

#24 kshefchek closed 4 years ago
3
Determine if more precise weather data can be obtained

#23 MagicMilly closed 4 years ago
1
Gh5 phenotypes

#22 MagicMilly closed 4 years ago
2
Determine how to convert ontology annotations to a dictionary

#21 dlebauer closed 4 years ago
6
Ask about loading VCF data into Solr (how do we load variant data into Monarch?)

#43 diatomsRcool closed 4 years ago
3
Create table for ontology annotations

#20 dlebauer closed 4 years ago
1
Add new columns for days_to_ and gdd_to_ calculations

#19 MagicMilly closed 4 years ago
1
Data should be in wide format with one column for each trait and one row per plot

#18 MagicMilly closed 4 years ago
1
Researchers need day of max canopy height

#17 MagicMilly closed 4 years ago
1
Researchers need growing degree day to emergence

#16 MagicMilly closed 4 years ago
1
Researchers need growing degree day to flowering

#15 MagicMilly closed 4 years ago
1
Researchers need range and column values for easier identification of plot location.

#14 MagicMilly closed 4 years ago
0
Researchers need max_canopy_height per plot for season.

#13 MagicMilly closed 4 years ago
1
Table needs single value per plot / row for max_canopy_height

#12 MagicMilly closed 4 years ago
1
Schedule and Meet with Ramona after Data Management Webinar

#11 MagicMilly closed 4 years ago
2
Calculate leaf-air temperature difference to add to dataset

#10 MagicMilly closed 4 years ago
1
Prepare spreadsheet for Jaiswal group to annotate TERRA REF data with TO terms

#9 dlebauer closed 4 years ago
7
Update Phenotype Table

#8 MagicMilly closed 4 years ago
2
Run Variant Effect Predictor on vcf file

#7 dlebauer closed 3 years ago
2
Automate Data Cleaning for Reproducibility

#6 MagicMilly closed 4 years ago
3
Create table of phenotypes

#5 dlebauer closed 4 years ago
11
Compile Agronomic Managements (Fertilizer, Irrigation)

#4 dlebauer closed 4 years ago
1
Compile Weather Data and Compute Daily Values for seasons 4 and 6

#3 dlebauer closed 4 years ago
1
Meet with Ramona and Jeannette to develop a plan for curating and publishing data

#2 dlebauer closed 4 years ago
4
Curate initial dataset for ML team

#1 dlebauer closed 4 years ago
7