nextclade
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Nextclade Command: Align Sequences To Reference Output Alignment
Use for align sequences to reference output alignment with Nextclade. Exact CLI syntax to align sequences to reference output alignment using Nextclade.
When to use this: Use for align sequences to reference output alignment with Nextclade.
Command Syntax
nextclade run <path/to/sequences.fa> -r <path/to/reference.fa> -o <path/to/alignment.fa>nextclade run <path/to/sequences.fa> -r <path/to/reference.fa> -o <path/to/alignment.fa>Command Breakdown
-r- Command Option
- Tool-specific option used by this command invocation.
-o- Command Option
- Tool-specific option used by this command invocation.
FAQ
Purpose: Exact syntax to align sequences to reference output alignment using Nextclade.
Test path: Replace placeholders and run destructive commands in a disposable workspace first.
Flag behavior: Tool version, platform, and shell can change behavior.
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