How can I use samtools with barcode list for many samples and many bams files ?

Question

[sammanmahmoud]

I have many bam files for experiments multiple samples and I have the barcode list for every sample such as : Jinguo1-A01:1 AAGTGA Jinguo1-A02:2 AGTTAAT Jinguo1-A03:3 CCACCA Jinguo1-A04:4 CTCGTCGT Jinguo1-A05:5 GCTAACA Jinguo1-A06:6 TCCGCA Jinguo1-B01:7 AATCG Jinguo1-B02:8 ATCATACCT Jinguo1-B03:9 CCACTGG Jinguo1-B04:10 CTTCCTCT Jinguo1-B05:11 GGAG

I have two problems the first : How to run samtools with many bams and many samples with different barcodes? The second problem that we do not know the adaptors for these bam files ? can you help us