is there any function to extract fastq for certain cells passing the filter?

[lixin4306ren]

Hi, I used umis cb_histogram to calculate reads count for each cell and then chose a count cutoff based on that. For the downstream analysis, such as pseudo-align and count UMI, we only need to deal with reads from those cells. Is there any function for this based on umis cb_histogram results? Thanks.

[roryk]

Hi Xin,

Sorry for not responding sooner. There isn't functionality for the FASTQ file, but there is from an alignment file. umis subset_bamfile will subset a BAM file and keep only the given cellular barcodes.