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Update website/docs/Pipelines/PairedTag_Pipeline/README.md
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Co-authored-by: Nikelle Petrillo <38223776+nikellepetrillo@users.noreply.github.com>
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ekiernan and nikellepetrillo authored Jul 18, 2024
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Expand Up @@ -60,7 +60,7 @@ The Paired-Tag workflow inputs are specified in JSON configuration files. Exampl
| Parameter name | Description | Type |
| --- | --- | --- |
| input_id | Unique identifier describing the biological sample or replicate that corresponds with the FASTQ files; can be a human-readable name or UUID. | String |
| nash_id | Optional identifier that can be used to demarcate the library aliquot or sample. |
| nhash_id | Optional identifier that can be used to demarcate the library aliquot or sample. |
| counting_mode | Optional string that determines whether the Optimus (GEX) pipeline should be run in single-cell mode (sc_rna) or single-nucleus mode (sn_rna); default is "sn_rna". | String |
| gex_r1_fastq | Array of read 1 FASTQ files representing a single GEX 10x library. | Array[File] |
| gex_r2_fastq | Array of read 2 FASTQ files representing a single GEX 10x library.| Array[File] |
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