## Seurat -Find group specific markers

### Description

This tool palplaplaa

### Parameters

- Base range for cell barcode [1-12]
- Base range for molecule barcode [13-20]
- Base quality [10]
- Adapter sequence [AAGCAGTGGTATCAACGCAGAGTGAATGGG]
- Mismatches in adapter [0]
- Number of bases to check in adapter [5]
- Mismatches in polyA [0]
- Number of bases to check in polyA [6]
- Minimum length of reads to keep [50]

### Output

- [input_name].bam : Tagged, trimmed & filtered unaligned BAM
- [input_name].fq.gz: Trimmed and filtered FASTQ file
- tagging_and_trimming_summary.txt: Summary of the tagging and trimming steps
- tagging_and_trimming_histograms.pdf: Graphics presenting the failed bases in tagging steps, and adapters and polyAs trimmed