> For the complete documentation index, see [llms.txt](https://help.bioinsight.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://help.bioinsight.illumina.com/emedgene/frequently-asked-questions/all-faq.md).

# All FAQ

{% content-ref url="/pages/4MxI7QJTfmykKyw0xCJj" %}
[Emedgene annotations and update frequency](/emedgene/emedgene-analyze-manual/tertiary-analysis-pipeline/annotation_updates.md)
{% endcontent-ref %}

{% content-ref url="/pages/yPLfkFwBu7BCjPveTkTt" %}
[How do I check my platform version?](/emedgene/emedgene-analyze-manual/settings/organization_settings_-330+/environment/platform-version/how_do_i_check_the_version_of_my_environment.md)
{% endcontent-ref %}

{% content-ref url="/pages/lMiOoiA2ib0JHBpqLwda" %}
[How do I move between organizations?](/emedgene/frequently-asked-questions/all-faq/how_do_i_move_between_organizations.md)
{% endcontent-ref %}

{% content-ref url="/pages/M6xQVz12QtI2NcRwIP5q" %}
[Required format for a BED file defining a kit](/emedgene/emedgene-analyze-manual/settings/organization_settings_-330+/kit-management/bed-files/what_is_the_required_format_for_a_bed_file_defining_a_kit.md)
{% endcontent-ref %}

{% content-ref url="/pages/n9t9AP6ZimHQmTzNVhk7" %}
[Joint calling in Emedgene](/emedgene/emedgene-analyze-manual/tertiary-analysis-pipeline/how_does_joint_calling_work_on_emedgene.md)
{% endcontent-ref %}

{% content-ref url="/pages/mKVWGkZWPin0ZWNBnp0A" %}
[Can I use exome data for CNV detection?](/emedgene/frequently-asked-questions/all-faq/can_i_use_exome_data_for_cnv_detection.md)
{% endcontent-ref %}

{% content-ref url="/pages/De4MyMNfnjQstmkFK8Kb" %}
[Formatting DRAGEN MANTA VCFs for Emedgene](/emedgene/emedgene-analyze-manual/supported-vcfs-variant-callers/how_do_i_prepare_vcf_files_generated_by_dragen_manta_to_be_used_as_input_for_emedgene.md)
{% endcontent-ref %}

{% content-ref url="/pages/aOAEqyKsV4H0HXuPKsEV" %}
[Formatting DRAGEN STR VCF files for Emedgene](/emedgene/emedgene-analyze-manual/supported-vcfs-variant-callers/how_do_i_prepare_vcf_files_generated_by_dragen_str_to_be_used_as_input_for_emedgene.md)
{% endcontent-ref %}

{% content-ref url="/pages/uteq72YNe99n522kbf1c" %}
[How do I analyze mtDNA variants?](/emedgene/frequently-asked-questions/all-faq/how_do_i_analyze_mtdna_variants.md)
{% endcontent-ref %}

{% content-ref url="/pages/aez0aeGvoJZtOBEbmRPh" %}
[Which browser should I use with Emedgene?](/emedgene/emedgene-analyze-manual/troubleshooting/which_browser_should_i_use_with_emedgene.md)
{% endcontent-ref %}

{% content-ref url="/pages/JSYyRUWbbUjakEKlpyhd" %}
[How do I use developer tools to collect logs?](/emedgene/emedgene-analyze-manual/troubleshooting/how_do_i_use_developer_tools_to_collect_logs.md)
{% endcontent-ref %}

{% content-ref url="/pages/tjAdsGij6B70JO5XXQll" %}
[Source of gnomAD data for small variants on GRCh38](/emedgene/frequently-asked-questions/all-faq/source_of_gnomad_data_for_small_variants_on_grch38.md)
{% endcontent-ref %}

{% content-ref url="/pages/oLUSnFSSRPnUVuEInxOh" %}
[Processing multi-nucleotide variants](/emedgene/emedgene-analyze-manual/tertiary-analysis-pipeline/how_are_mnvs_handled_on_the_platform.md)
{% endcontent-ref %}

{% content-ref url="/pages/GeUauD2Jundiv3ohxMlf" %}
[Support for gene lists with up to 10,000 genes](/emedgene/frequently-asked-questions/all-faq/support_for_gene_lists_with_up_to_10-000_genes.md)
{% endcontent-ref %}

{% content-ref url="/pages/tNOKgInfb6ropvsL5KHY" %}
[Performance issues troubleshooting](/emedgene/emedgene-analyze-manual/troubleshooting/performance_issue_troubleshooting.md)
{% endcontent-ref %}

{% content-ref url="/pages/n4G4ujyJP0wOvbeLz5j3" %}
[Transcript prioritization logic](/emedgene/emedgene-analyze-manual/tertiary-analysis-pipeline/how_does_emedgene_analyze_prioritize_transcripts.md)
{% endcontent-ref %}

{% content-ref url="/pages/hkCstetFvcwlsWA9jJrz" %}
[Variant effect and severity calculation](/emedgene/emedgene-analyze-manual/tertiary-analysis-pipeline/how_does_emedgene_calculate_variant_effect_and_severity.md)
{% endcontent-ref %}

{% content-ref url="/pages/lPFIJg6YJRAfQI3P77l9" %}
[Variant effect filters](/emedgene/emedgene-analyze-manual/reviewing_a_case/analysis-tools-tab-beta-v100.39.0+/filters_presets_panel/filters/quick-filters/variant_effect_filters.md)
{% endcontent-ref %}


---

# Agent Instructions
This documentation is published with GitBook. GitBook is the documentation platform designed so that both humans and AI agents can read, navigate, and reason over technical content effectively. Learn more at gitbook.com.

## Querying This Documentation
If you need additional information that is not directly available in this page, you can query the documentation by asking a question.

Perform an HTTP GET request on the following URL with the `ask` and `goal` query parameters:

```
GET https://help.bioinsight.illumina.com/emedgene/frequently-asked-questions/all-faq.md?ask=<question>&goal=<user_goal>
```

`ask` is the immediate question: it should be specific, self-contained, and written in natural language.
`goal` is what the user is ultimately trying to achieve, the reason they need the answer. Sharing it helps GitBook give you a better, more relevant answer. A goal is most helpful when it describes the outcome the user wants rather than restating the question. For example, with `ask=how do I create an API token`, a goal like `automate deployments from our CI pipeline` lets GitBook tailor the answer to that use case.

The response will contain a direct answer to the question and relevant excerpts and sources from the documentation.

Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.