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Removal of notes used when testing VCF genotype search. Formatting up…
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…date for feature names
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kennyAgricultureVic committed Dec 23, 2024
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14 changes: 4 additions & 10 deletions docs/Use-Cases/VCF-genotype-search.md
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In this Use Case, a summary of genotypes for AGG Plant Genetic Resources can be simply and rapidly visualised. For example, a user may wish to view the genotypes for a set of accessions of interest at a small subset of trait linked markers, to make a decision on which accessions to use in an experiment. In this example we will use Pretzel to display a summary of a set of AGG barley Plant Genetic Resources at two markers
AVRIG00246 and AVRIG00484.

!!! note

The following feature is currently being developed. Please access it at [https://dev.plantinformatics.io/login](https://dev.plantinformatics.io/login) using the following login credentials.
Username: test@test
Password: test


![vcf-feature-search](https://github.com/user-attachments/assets/f29743ac-29ff-4660-a384-5991cc48028c)

## Loading a VCF and selecting samples
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## Adding features to be searched
Within the Features input text box, paste your feature IDs.
The one used in this example is:

AVRIG00246
AVRIG00484
``` text title="Feature names"
AVRIG00246
AVRIG00484
```
![vcf-feature-search-05](https://github.com/user-attachments/assets/a914dd99-83eb-421e-b5cf-c6a17d36abb9)
## End output
![vcf-feature-search-06](https://github.com/user-attachments/assets/44b9ca10-cb88-4342-b5ef-06ac47faf054)
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Expand Up @@ -5,9 +5,10 @@ Click on the "Search" button the left hand search panel
![enter image description here](https://pretzel-images-public.s3.ap-southeast-2.amazonaws.com/use-case/visualise-subset-of-markers%E2%80%8B/sm-1.png)

Enter the a list of feature names into the search text box input and press the search button

AVRIG00246
AVRIG00484
``` text title="Feature names"
AVRIG00246
AVRIG00484
```

![enter image description here](https://pretzel-images-public.s3.ap-southeast-2.amazonaws.com/use-case/visualise-subset-of-markers%E2%80%8B/sm-2.png)

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