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remapping input should be Unmapped.out.mate or mate of PE? #92

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genebial opened this issue Nov 28, 2021 · 0 comments
Open

remapping input should be Unmapped.out.mate or mate of PE? #92

genebial opened this issue Nov 28, 2021 · 0 comments

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@genebial
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Excuse me for a sec.
In the slurm_circtools_detect_paired_mapping.sh, it is recommended to remap the Unmapped.out.mate from the 1st mapping, respectively.
But in the "Manual mapping process" part, it is recommended to remap the Sample1_1.fastq.gz, which is one of the pair ends reads.
I am confused. Which one should take?
THANK YOU for your time.
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@genebial