Is your feature request related to a problem? Please describe
My insert size is distributed between 100 and 1000 nt. However, bowtie2's default size for maximum insert size (--maxins parameter) is 500…
Describe the solution you'd like
Could you either pass a max insert size of ~1000 to aligners, or provide an option to override the default ?
Describe alternatives you've considered
I could not find an alternative way of doing this with nf-core/eager.
Additional context
I am using nf-core/eager as simple realignment and QC pipeline for non-ancient DNA, because 1) there is no alternative in nf-core and b) eager is very good for that purpose. Thank you for developing it !
Is your feature request related to a problem? Please describe
My insert size is distributed between 100 and 1000 nt. However,
bowtie2's default size for maximum insert size (--maxinsparameter) is 500…Describe the solution you'd like
Could you either pass a max insert size of ~1000 to aligners, or provide an option to override the default ?
Describe alternatives you've considered
I could not find an alternative way of doing this with nf-core/eager.
Additional context
I am using nf-core/eager as simple realignment and QC pipeline for non-ancient DNA, because 1) there is no alternative in nf-core and b) eager is very good for that purpose. Thank you for developing it !