Remove or keep the overdispersed reads in Single cell RNA seq analysi
Hello I am working on single cell in my data fastqc showing overdispersed read as below I have to remove this sequences or not can anyone suggest me
if yes how can I remove please mention tools related
Sequence Count Percentage Possible Source
TATCAACGCAGAGTACTTTTTTTTTTTTTTTTTTTTTTTTTTT 13087 0.48103129699078845 No Hit
GGTATCAACGCAGAGTACTTTTTTTTTTTTTTTTTTTTTTTTT 6111 0.2246184959051508 No Hit
GTATCAACGCAGAGTACTTTTTTTTTTTTTTTTTTTTTTTTTT 5368 0.19730847422988865 No Hit
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hemantcnaik •
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What platform is this single cell sequencing data from? Generally if this is 10x then it
cellrangersoftware will take care of eliminating/soft-clipping the data during alignment.Thanks for your reply, Illumina HiSeq 2500 squencer
genomax was asking about the type of library (e.g. 10x, Smart-Seq, InDrop, MARS...), not the sequencer. Anyway, the percentages of these overrepresented sequences are tiny. I would ignore it and proceed with analysis.
Thank you for your reply.