How to run interleaved reads sample

[Damianla]

Dear Vamb teams,

Hope you are doing well!

How to run interleaved reads sample with avamb?
for line in fh_in:
line = line.rstrip()
fields = line.split('\t')
IDS.append(fields[0])
sample2path[fields[0]] = [fields[1],fields[2]]
It seems that only forward and backward read data sample can be used here

Could you have any suggestions for me to improve?
Thank you in advance.

[jakobnissen]

Dear @Damianla

Currently, the AVAMB workflow does not support interleaved reads. You will need to de-interleave them manually.

Best regards,
Jakob