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bacpop / unitig-caller

Methods to determine sequence element (unitig) presence/absence
Apache License 2.0
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paired-end reads for call mode #21

Open yayahoho1 opened 1 year ago

yayahoho1 commented 1 year ago

Hi, if paired-end reads would be used in call mode, how to generate a input file? would read1 and read2 be in different rows?

thanks in advance !

yayahoho1 commented 1 year ago

Can i just use one arguments --refs or --reads?

samhorsfield96 commented 1 year ago

Hi, you can generate the input file as normal using ‘ls -d -1 $PWD/*.fastq > input.txt’, the read1 and read2 files will be on different lines as paired end information isn’t used to generate unitigs. You can also just use the ‘—reads’ flag.