nextclade
Verified for current stable LTS
Nextclade Command: Run On Multiple Files
Use for run on multiple files with Nextclade. Exact CLI syntax to run on multiple files using Nextclade.
When to use this: Use for run on multiple files with Nextclade.
Command Syntax
nextclade run -d <dataset_name> -t <path/to/output_tsv> -- <path/to/input_fasta_1 path/to/input_fasta_2 ...>nextclade run -d <dataset_name> -t <path/to/output_tsv> -- <path/to/input_fasta_1 path/to/input_fasta_2 ...>Command Breakdown
-d- Command Option
- Tool-specific option used by this command invocation.
-t- Command Option
- Tool-specific option used by this command invocation.
--- Command Option
- Tool-specific option used by this command invocation.
FAQ
Purpose: Exact syntax to run on multiple files 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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Related Operations
Nextclade Command: Align Sequences To Reference Output Alignment
nextclade run <path/to/sequences.fa> -r <path/to/reference.fa> -o <path/to/alignment.fa> Nextclade Command: Create Tsv Report Auto Download Dataset nextclade run <path/to/fasta> -d <dataset_name> -t <path/to/report.tsv> Nextclade Command: Download Latest Sars Cov 2 Dataset nextclade dataset get -n sars-cov-2 -o <path/to/directory> Nextclade Command: List Available Datasets nextclade dataset list Nextclade Command: Try Reverse Complement If Sequence Not Align nextclade run --retry-reverse-complement -d <dataset_name> -t <path/to/output_tsv> <path/to/input_fasta>