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laurahspencer / DuMOAR

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Remove bacteria sequences from RNA-seq data #35

Closed sr320 closed 10 months ago

sr320 commented 1 year ago

per https://github.com/laurahspencer/DuMOAR/issues/26#issuecomment-1613501939

mapping rates likely impacted by most sequences not crab...

Open to approach -

kubu4 commented 1 year ago

MEGAN can do this. Per https://github.com/laurahspencer/DuMOAR/issues/26#issuecomment-1613420438, I'll get all DAA files converted and then MEGAN will be able to extract reads based on taxonomic assignment.

sr320 commented 1 year ago

some summary stats

https://rpubs.com/sr320/1065657

laurahspencer commented 1 year ago

Decision 7/25 - keep RNASeq data that mapped to Arthropoda and Not Assigned for gene expression analysis. Remove rest.