Advanced Tool
Advanced Tool - Advanced User👩💻 👨💻
MpoxRadar provides an interactive map and informative data to explore and understand current mpox data. It builds on top of MpoxSonar and integrates closely with many reliable python libraries and data structures. MpoxSonar is an extension of Covsonar (the database-driven system for handling genomic sequences of SARS-CoV-2 and screening genomic profiles, developed at the RKI (https://github.com/rki-mf1/covsonar)) that adds support for multiple genome references and quick processing with MariaDB. MpoxRadar provides the feature to interact with MpoxSonar for a specific type of query.
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A. Type the query command in the input field.
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B. Syntax validator checks for mistakes and errors
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- C. Click submit button to send the query
Note: User can find more example queries with tooltips at "example command tab".
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The loading screen indicates that the query is currently processing and loading.
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Note: User can click export button to download the result.
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- Map will be updated when the table result gets an update.
- Map legends display mutations in accordance with their sizes.
- For more flexibility in map rendering, some mutations with frequencies less than a certain number are filtered out (please download the full result from the table for downstream analysis).
| Description | Example command |
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| Select all samples from reference 'NC_063383.1', and in USA | match -r NC_063383.1 --COUNTRY USA |
| Select all samples that have a range from 1 to 60 of deletion mutation (e.g., del:1-60, del:1-6, del:11-20). | match --profile del:1-60 |
| Select all samples except samples contain C162331T mutation (‘^’ = exclude/neglect) | match --profile ^C162331T |
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Combine with 'OR' search; for example, get all samples that have mutation at L246F in all references.
In our case;
(provide --profile tag separately)
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match --profile OPG188:L246F --profile
MPXV-UK_P2-164:L246F --profile
MPXV-USA_2022_MA001-164:L246F
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| 'AND' operation; for example, get all samples that have a mutation at A151461C and exact 1-6 deletion(concate a query at same --profile) | match --profile A151461C del:=1-=6 |
| Select all samples from sequence length in a range between 197120 and 197200 base pairs | match --LENGTH >197120 <197200 |
| Get sample by name. | match --sample ON585033.1 |