What are R1, R2, R3, and I1 in a illumina sequencing data, and how can I get more information about them?
2
0
Entering edit mode
2.1 years ago
Vijith ▴ 60

I am a fresher in Bioinformatics, especially in NGS. As of now, I am working on a WGS project, and the sequence read data include R1, R2, R3, and I1. I have understood that I1 is the index file, and based on query with someone I was told that R2 is barcode data. Can someone help me how we can delineate those information about the read files?

image

illumna NGS generation sequencing next • 3.0k views
ADD COMMENT
3
Entering edit mode
2.1 years ago
GenoMax 146k

Are you sure this is a WGS project? In general these kind of data files are produced as a part of multiome 10x single-cell ATAC 10x projects produced by cellranger-arc mkfastq software. They are then used with cellranger-arc count.

I1: Dual index i7 read 
R1: Read 1
R2: Dual index i5 read
R3: Read 2 
ADD COMMENT
1
Entering edit mode
2.1 years ago
Prash ▴ 280

I agree with GenoMax And even for natepairs, these are NOT the labeling used. I is certainly the index case. Can you please provide the screenshot of files?

ADD COMMENT
0
Entering edit mode

enter image description here

ADD REPLY
0
Entering edit mode

:-) I was expecting the file sizes. sorry

ADD REPLY

Login before adding your answer.

Traffic: 2408 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6