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snijderlab / stitch

Template-based assembly of proteomics short reads for de novo antibody sequencing and repertoire profiling
MIT License
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How can I use Stitch to assemble my peptide sequences? #245

Closed huangli1219 closed 7 months ago

huangli1219 commented 7 months ago

Hello Sir, I used PEAKS to generated my peptides sequences and exported them into csv. format. I would like to ask if I use Stitch to assemble them, can I just edit the pathand Format in monoclonal.txt from batchfiles, then run the monoclonal.txt ? Do I need to modify other places?

douweschulte commented 7 months ago

Yes, that's it! Unless you want Stitch to behave differently in some areas that is all you need. So, I would advise to just try it out, looks through the results and see what it does. Once you have a bit of an understanding of how it works you can play with the settings to make the runs more specific for your usecase. If you want more information about specific settings, or an overview of which exist, take a look at the manual that you can find next to the download. As I assume this answers your question I will close this issue, if you have any other questions feel free to ask!