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Nanopore RNA Sequencing Protocol
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====Minimap2==== Next up is ''Minimap2'', which is a pairwise sequence alignment program that can align your processed reads to the transcriptome (or genome). Note that I will install it here using ''Conda'': <code>Bash</code> <syntaxhighlight lang="Bash"> conda install minimap2 </syntaxhighlight> You can also install it from GitHub like so, but know that you will need to do some additional work to allow you to call ''Minimap2'' from any directory without ''Conda''. <code>Bash</code> <syntaxhighlight lang="Bash"> git clone https://github.com/lh3/minimap2 cd minimap2 && make </syntaxhighlight>
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