Is there an equivalent of "Bowtie2 --very-sensitive" for Bowtie1 [suggested label = Question]

[AndreaMariani-AM]

Hi all,

great tools guys. As the title says, i was debating with some colleagues as whether there is an alternative/a close set up that one can use to replicate (to certain extents) the behaviour of the command

bowtie2 --very-sensitive

with the software bowtie1. We came across a paper that uses that bowtie2 for its alignment and we were wondering if we can replicate it somehow with bowtie1 or there's gonna be a huge difference if someone would run bowtie1 with their own parameters.

I'm looking for any advices on this matter.

Thanks again