#how many barcode combinations did we have?
#First look at the barcodes file:
cat barcodes_Lib1.tsv
#then count the lines
cat barcodes_Lib1.tsv | wc -l
#how r1 and r2 fastq files did we output (ignore the 'rem' files)
ls sample_fastqs/*AGCGAC.1.fq
ls sample_fastqs/*AGCGAC.1.fq
ls sample_fastqs/*AGCGAC.1.fq | wc -l
ls sample_fastqs/*AGCGAC.1.fq | wc -l
#are the paired end files still the same length?
cat sample_fastqs/sample_CATAT-AGCGAC.1.fq | wc -l
cat sample_fastqs/sample_CATAT-AGCGAC.2.fq | wc -l |