search

milaboratory / mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
https://mixcr.com
Other
317 stars 78 forks source link

What is the DNA clone sequence after clustering? #77

Closed fabio-t closed 8 years ago

fabio-t commented 8 years ago

My understanding is that clonal sequences which are very similar will be clustered together after alignment, and a "consensus" sequence will be used. So the "clone count" refers to all occurrences of all sequences clustered together.

How is this consensus generated?

PoslavskySV commented 8 years ago

Yes, you are right that the "clone count" refers to all occurrences of all sequences clustered together. For the detailed information on how this consensus generated, look https://mixcr.readthedocs.org/en/latest/assemble.html#assemble-clones

fabio-t commented 8 years ago

Ah, I had missed that: the "consensus" is actually the "head" sequence. Thanks for the link.

PoslavskySV commented 8 years ago

@fabioticconi you are welcome:)