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mandricigor / imrep

ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
https://mandricigor.github.io/imrep/
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additional output #3

Closed smangul1 closed 7 years ago

smangul1 commented 7 years ago

Let's make this output per chain

CLLKLSILSNCVLKWYLKQVVLKGLLF 1 CCSAVRVIPFVLHQPLCLPCLKLLQFLLRQLFQCF 2

where CDD3 and number of reads supporting it

How do you think we need to deal wth partial overlapping reads? Count them? In case CDR3 was assembled from 2 partially-mapped reads, should count be 2?

mandricigor commented 7 years ago

Could you please explain your comment in more details? I do not understand it.

mandricigor commented 7 years ago

Made count be 2 (as sum of counts for partially overlapping reads).