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fix defaults
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docs/parameters.md

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@@ -43,13 +43,13 @@ For **pre-demultiplexed** data (prepared using external tools):
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### Demultiplexing
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| Parameter | Description | Default Value |
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| -------------------- | ----------------------------------------------------------------------------------------------------------------- | ------------- |
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| `--demultiplexed` | Whether input is multiplexed (`false`, single FASTQ file) or pre-demultiplexed (`true`, multiple FASTQ files) ^1^ | `false` |
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| `--lima_minscore` | Barcode score for demultiplexing ^2^ | 93 |
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| `--lima_barcodetype` | Barcoding scheme type (`single`, `dual`, `dual_symmetric`, `dual_asymmetric`) ^3^ | `dual` |
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| `--lima_W` | Window size for barcode lookup | 70 |
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| `--lima_minlen` | Minimum sequence length after clipping barcodes | 40 |
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| Parameter | Description | Default Value |
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| -------------------- | ----------------------------------------------------------------------------------------------------------------- | ---------------- |
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| `--demultiplexed` | Whether input is multiplexed (`false`, single FASTQ file) or pre-demultiplexed (`true`, multiple FASTQ files) ^1^ | `false` |
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| `--lima_minscore` | Barcode score for demultiplexing ^2^ | 93 |
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| `--lima_barcodetype` | Barcoding scheme type (`single`, `dual`, `dual_symmetric`, `dual_asymmetric`) ^3^ | `dual_symmetric` |
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| `--lima_W` | Window size for barcode lookup | 70 |
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| `--lima_minlen` | Minimum sequence length after clipping barcodes | 40 |
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^1^:
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By default, NextITS assumes you're providing multiplexed data,

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