Aggregate sequencing/mapping/etc. metrics from cellranger across Illumina samples
I wrote a simple script to do it. Not sure whether that's what you want.
#!/bin/bash
#CellrangerSummary.sh Sample1 Sample2
csvtool transpose $1/outs/*summary.csv | csvcut -c 1 &gt; summary.csv
for sample in "$@&quot;
    do
        csvtool transpose $sample/outs/*summary.csv &gt; tempfilesforcsvtool.$sample
        csvjoin -c 1 summary.csv tempfilesforcsvtool.$sample &gt; temp2
    mv temp2 summary.csv
rm tempfilesforcsvtool.$sample
    done

csvformat -T summary.csv &gt; summary.tsv
rm summary.csv
```