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richelbilderbeek / bianchi_et_al_2017

R code for 'Transmembrane Helices Are an Overlooked Source of Major Histocompatibility Complex Class I Epitopes', by Frans Bianchi, Johannes Textor and Geert van den Bogaart
http://journal.frontiersin.org/article/10.3389/fimmu.2017.01118/full#supplementary-material
MIT License
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Where does 'trans-membrane-analysis-shortened.txt' come from? #4

Open richelbilderbeek opened 4 years ago

richelbilderbeek commented 4 years ago

tmh-predictions/trans-membrane-analysis-shortened.txt is present in a file at the start of the run.

Unknown is: how is this file created.

Showing it:

richel@sonic:~/GitHubs/bianchi_et_al_2017$ head tmh-predictions/trans-membrane-analysis-shortened.txt -n 10

I get:

A0A075B6K6      inside  1       1
A0A075B6K6      TMhelix 2       24
A0A075B6K6      outside 25      122
A0A075B734      inside  1       40
A0A075B734      TMhelix 41      63
A0A075B734      outside 64      67
A0A075B734      TMhelix 68      90
A0A075B734      inside  91      123
A0A075B734      TMhelix 124     146
A0A075B734      outside 147     155
richelbilderbeek commented 4 years ago

I predict it is created by EpitopePrediction.