Forum: Is the read length of BGI/ CompleteGenomics Revolocity long enough to compete with Illumina X10?
gravatar for William
4.2 years ago by
William4.4k wrote:

BGI / CompleteGenomics just released the Revolocity sequencing platform.


And this news article and blog post

The selling points are that it offers and end to end solution, from sample to VCF file (gVCF?) and can sequence a comparable amount of samples as the x10. Nice if you are happy doing exactly what BGI offers, not so much if you want more flexibility.

What really surprised me though is that the read length is 28 bp paired end. That is 5 x less compared to 150bp on the x10. Surely this affects the mapping quality of the reads and the type and quality of variant calls you can make. 

forum x10 revolocity illumina • 3.2k views
ADD COMMENTlink modified 4.2 years ago by RamRS23k • written 4.2 years ago by William4.4k

We recently used CG platform to perform Exome sequencing on couple of samples. As you mentioned read length is very short (varies between 19-28). Even though coverage we got is huge (more than a billion reads per sample !), around 20% of them were MQ < 10. Also downstream analysis such as variant calling is a lot trickier at this read length and contains lot of variants, most of them are what appears to be false positives.

ADD REPLYlink written 4.2 years ago by poisonAlien2.8k

Are CG reads still like the old ones, with 3 unknown gaps or overlaps between four 7-8bp segments? That was the worst part of CG data. I am very impressed by CG developers in that they could get pretty good results given such difficult raw data. They have done a great job.

ADD REPLYlink modified 4.2 years ago • written 4.2 years ago by lh331k

Should this be a Forum post instead?

ADD REPLYlink written 4.2 years ago by Dan D6.8k

I'd think so, I've moved it accordingly.

ADD REPLYlink written 4.2 years ago by Devon Ryan91k
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