importing mixcr dataset via tcR about tcr

[vadimnazarov]

Hi,

1. You should use parse.mixcr in order to parse the MiXCR files. Yes, first you run exportClones, and after that you parse the output files to R with parse.mixcr. I think you could just run mixcr exportClones clones.clns clones.txt, i.e., without any parameters, to get the suitable for tcR output tables.

2. You just need to put all your clns files to the same folder, and after that run your_list = parse.folder(path_to_your_folder, "mixcr"). Run ?parse.folder for more info.

I hope this helps. If not please message me here or by email.

[zuta-osa77]

hey thanks Vadim

On Wed, Aug 10, 2016 at 1:08 PM, Vadim Nazarov [email protected]
wrote:

Hi,

1. You should use parse.mixcr in order to parse the MiXCR files. Yes,
   first you run exportClones, and after that you parse the output files to R
   with parse.mixcr. I think you could just run mixcr exportClones
   clones.clns clones.txt, i.e., without any parameters, to get the suitable
   for tcR output tables.

2. You just need to put all your clns files to the same folder, and after
   that run your_list = parse.folder(path_to_your_folder, "mixcr"). Run
   ?parse.folder for more info.

I hope this helps.

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[vadimnazarov]

No problems, please let me know if it works for you or not, so I would be able to help you / close this issue.

[zuta-osa77]

Yes this worked out, thanks again for your help. I have another related question concerning filtering this imported dataset -- would you prefer in the interests of good organization that I open a new issue, ask you this in private, or just ask here?

[vadimnazarov]

Nice! Regarding another question - please, either open a new issue or send me an email, which way is more comfortable for you.