Last updated: 2021-07-22
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Knit directory: CassavaArchitectureGP/
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | 73f4e1f | LucianoRogerio | 2021-07-22 | wflow_publish(“analysis/PhenData.Rmd”) |
| html | ce3ca50 | LucianoRogerio | 2021-07-21 | Build site. |
| Rmd | e7db3e0 | LucianoRogerio | 2021-07-21 | Publish the update 1 Phenotypic data CassavaArchitectureGP |
Initialy we are going to download phenotypic data from Cassavabase. In this case we are going to download the data from traits related to plant Architecture, as the following table:
| Trait | Cassavabase code | Description |
|---|---|---|
| plant architecture visual rating 1-5 | CO_334:0000099 | Plant architecture on a 1-5 scale with 1 = excellent, 2 good, 3 = fair, 4 = bad, and 5 = very bad |
| plant architecture visual rating 1-5 at month 8 | COMP:0000119 | |
| flowering ability visual assessment 0-3 | CO_334:0000233 | Presence of flowers (0=none; 1=little; 2=intermediate; 3=many). |
| flower visual rating 0&1 | CO_334:0000111 | Visual rating of flowers (50%) in plant with 0 = absent and 1 = present. |
| initial plant vigor assessment 1-5 | CO_334:0000220 | Visual assessment of plant vigor during establishment (1=very little vigor, and 5 = very vigorous). as being evaluated by CIAT. |
| initial vigor assessment 1-7 | CO_334:0000009 | Visual assessment of plant vigor during establishment scored one month after planting. 3 = Not vigorous, 5 = Medium vigor, 7 = highly vigorous. |
| number of forks counting | CO_334:0000146 | Number of branches (2 forks/branches (dichotomous), 3 forks/branches (trichotomous), or 4 forks/branches (tetrachotomous)) at every branching level. |
| number of forks on branching level 1 counting | CO_334:0000522 | Number of forks (2 forks/branches (dichotomous), 3 forks/branches (trichotomous), or 4 forks/branches (tetrachotomous)) on the first branching level. |
| number of forks on branching level 2 counting | CO_334:0000523 | Number of forks (2 forks/branches (dichotomous), 3 forks/branches (trichotomous), or 4 forks/branches (tetrachotomous)) on the second branching level. |
| number of forks on branching level 3 counting | CO_334:0000524 | Number of forks (2 forks/branches (dichotomous), 3 forks/branches (trichotomous), or 4 forks/branches (tetrachotomous)) on the third branching level. |
| number of nodes at branching level 1 counting | CO_334:0000352 | Number of nodes at the first branching level. |
| number of nodes at branching level 2 counting | CO_334:0000363 | Number of nodes at the second branching level. |
| number of nodes at branching level 3 counting | CO_334:0000368 | Number of nodes at the third branching level. |
| plant height measurement in cm | CO_334:0000018 | Vertical height of plants from the ground to top of the canopy measured in centimeter (cm). |
| plant height measurement in cm at month 12 | COMP:0000181 | |
| plant height with leaf in cm | CO_334:0000123 | Portion of the stem with leaves measured as the distance in centimeter from the point of attachment of the oldest leaf to the youngest leaf (apical leaf portion). |
| plant height without leaf | CO_334:0000125 | Portion of stem with no leaf measured in centimeter (cm) by deducting plant height with leaf from plant height. |
| plant height without leaf at month 12 | COMP:0000182 | |
| stalk length evaluation | CO_334:0000227 | Visual assessment of the average length of the stalks (1=short; 2=intermediate; 3=long) |
| stem diameter measurement in cm | CO_334:0000257 | Measurement of stem diameter taken on the middle of the plant in centimeter (cm) using the vernier caliper. |
| stem diameter measurement in cm at month 5 | COMP:0000129 | |
| stem diameter measurement in cm at month 6 | COMP:0000130 |
Use the following filters: 1. Select the trait list TraitsLucianoGS 2. Select the following Trial Types: - Clonal Evaluation; - Preliminary Yield Trial; - Advanced Yield Trial; - Uniform Yield Trial; - Regional Trials; - phenotyping_trial. 3. Select Years from 2010 to 2021. 4. Select all the trials available at cassavabase after the filter.