Human Macrophage Transcriptome
I have a set of reads that may be 80% human macrophage as determined by mapping and 20% parasite. To remove the reads I am not interested in, I would like to download a human macrophage transcriptome. I'm curious if there is a way to download the specific macrophage transcriptome or if I need to download the whole human transcriptome.
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Biostar
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gfwatson •
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gfwatson •
1 answer
You don't specifically need to download a macrophage transcriptome, just align with STAR or a similar aligner to the human genome. The unaligned reads will be primarily parasite (with a couple random human reads that couldn't be aligned).
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Devon Ryan
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