Question

Why only reverse fatsq file is used for mapping step in single cell RNA sequencing analysis?

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4.0 years ago

nazaninhoseinkhan ▴ 530

Dear all,

I am following a tutorial to do ScRNA-Seq analysis.

In the mapping step it has been advised to use the reverse strand, however I don't understand the logic behind this.

Can anyone explain to me why we should only use the reverse file for mapping?

Regards

ScRNA-Seq • 1.5k views

ADD COMMENT • link updated 2.6 years ago by Ram 45k • written 4.0 years ago by nazaninhoseinkhan ▴ 530

score 3 · Answer 1 · 2021-11-07

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4.0 years ago

cpad0112 21k

R1 is bar codes+UMI

ADD COMMENT • link 4.0 years ago by cpad0112 21k

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Thank you so much

So it means that both reverse and forward strands have been merged in R2?

ADD REPLY • link 4.0 years ago by nazaninhoseinkhan ▴ 530

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There is no merging.

ADD REPLY • link 4.0 years ago by cpad0112 21k