Question: Need Help designing a workflow
0
gravatar for ZBL
2 days ago by
ZBL0
University of the Philippines
ZBL0 wrote:

Hello!

I'm very new here, and was forced to shift to writing a bioinformatics dissertation because almost all the wet-labs in my country are closed. I am absolutely clueless about how this works and am still studying basic Python/R in the mean time. That being said, I need help designing a workflow for the specific reason of comparing resistance gene abundance between multiple samples of soil.

Would bowtie2 or blastn be more suitable for my needs? Would I need to assemble the data from the Illumina sequencer before alignment?

Many Thanks,

Zach

ADD COMMENTlink written 2 days ago by ZBL0

Have you found any papers describing what you want to do?

ADD REPLYlink written 2 days ago by swbarnes28.8k

Thank you for your response! I have been reading papers for the past few weeks and some have similar goals although really just differ in the assembly or alignment tools used respectively. I apologize if I seem unknowledgeable.

ADD REPLYlink written 1 day ago by ZBL0
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