# Variant Analysis Variations in nucleotide sequence, in the form of single nucleotide variants (SNVs) and insertion and deletion events (INDELs), can either be neutral in nature or can have functional effects. Partek Flow provides all the tools necessary to interrogate and prioritize variants for further analysis. Variants stored in Variant Call Format (vcf) files can be analyzed to filter, annotate, summarize, visualize, and validate your panel of identified variants. Multiple vcf processing tools are available under the *Variant analysis* section of the context sensitive menu * [Fusion Gene Detection](/partek/partek-flow/user-manual/task-menu/variant-analysis/fusion-gene-detection.md) * [Annotate Variants](/partek/partek-flow/user-manual/task-menu/variant-analysis/annotate-variants.md) * [Annotate Variants (SnpEff)](/partek/partek-flow/user-manual/task-menu/variant-analysis/annotate-variants-snpeff.md) * [Annotate Variants (VEP)](/partek/partek-flow/user-manual/task-menu/variant-analysis/annotate-variants-vep.md) * [Filter Variants](/partek/partek-flow/user-manual/task-menu/variant-analysis/filter-variants.md) * [Summarize Cohort Mutations](/partek/partek-flow/user-manual/task-menu/variant-analysis/summarize-cohort-mutations.md) * [Combine Variants](/partek/partek-flow/user-manual/task-menu/variant-analysis/combine-variants.md) ## Additional Assistance If you need additional assistance, please visit [our support page](http://www.partek.com/support) to submit a help ticket or find phone numbers for regional support. --- # Agent Instructions: Querying This Documentation If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question. Perform an HTTP GET request on the current page URL with the `ask` query parameter: ``` GET https://help.connected.illumina.com/partek/partek-flow/user-manual/task-menu/variant-analysis.md?ask= ``` The question should be specific, self-contained, and written in natural language. 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.