I am doing a single cell ATAC-seq analysis. My data was generated using the 10x kit. Shown in the attachment is a part of the report generated by the 'cellranger-atac count' pipeline of the 10x.

Below is my command to run the pipeline

cellranger-atac count --id=ATAC_2 --fastqs=~/ATAC_2/ --sample=ATAC_2 --reference=~/hrs1p0_primary --chemistry=ARC-v1

In above picture, yellow dots represent the 'cell' selected by the pipeline, and blue represents unselected. However, I think the part circled by the red line in the image below is the data I'm interested in:

So I did the 'force cell' number:

cellranger-atac count --id=ATAC_2_1500 --fastqs=~/ATAC_2/ --sample=ATAC_2 --reference=~/hrs1p0_primary --chemistry=ARC-v1 --force-cells=1500

The selection of cells was forced to increase, but not as much as I needed:

How could I select low 'fraction fragments overlapping peaks' but 'high fragments per barcode' in scATAC-seq analysis? In the pipeline manualenter link description here, there are no more options to set. Is there any other way or tool?

Thank you for your attention！