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Update tutorial.md
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subinamehta authored Nov 14, 2024
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Expand Up @@ -209,15 +209,16 @@ PepQuery2 is a tool used to validate novel peptides and proteins by searching ma

## Filtering Tabular Data with **Query Tabular**

Query Tabular is a tool used to query tabular datasets using SQL-like commands. In this step, the tool is used to filter and extract specific data from the results generated by PepQuery2 (specifically the psm_rank_txt dataset). The query provided selects specific columns (e.g., c1 and c4) from the table where a condition(e.g., c20 = 'Yes') is met. This allows the user to filter the peptide-spectrum matches (PSMs) based on certain criteria, such as identifying PSMs that were validated with a "Yes" condition. The tool helps organize the data into a more manageable and relevant format for further analysis.
Query Tabular is a tool used to query tabular datasets using SQL-like commands. In this step, the tool is used to filter and extract specific data from the results generated by PepQuery2 (specifically the psm_rank_txt dataset). The query provided selects specific columns from the table where a condition is met. This allows the user to filter the peptide-spectrum matches (PSMs) based on certain criteria, such as identifying PSMs that were validated with a "Yes" condition. The tool helps organize the data into a more manageable and relevant format for further analysis.

> <hands-on-title> Query tabular </hands-on-title>
>
> 1. {% tool [Query Tabular](toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.3.2) %} with the following parameters:
> - In *"Database Table"*:
> - {% icon param-repeat %} *"Insert Database Table"*
> - {% icon param-file %} *"Tabular Dataset for Table"*: `psm_rank_txt` (output of **PepQuery2** {% icon tool %})
> - *"SQL Query to generate tabular output"*: `SELECT c1,c4
> - *"SQL Query to generate tabular output"*:
`SELECT c1,c4
FROM t1
WHERE (c20 = 'Yes')
`
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