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remkv6 committed Oct 15, 2024
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Here we will be using a set of predicted proteins from a plant parasitic nematode genome to predict secretion, transmembrane domains, and subcellular localization.
Here we will be using a set of predicted proteins from a plant parasitic nematode genome to predict protein secretion, transmembrane domains, and subcellular localization.

**Software used in this tutorial**
- SignalP 6.0 [Teufel et al., 2022](https://www.nature.com/articles/s41587-021-01156-3)
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```
# Transmembrane domains
### TMHMM 2.0
TMHMM 2.0 uses a hidden Markov model (HMM) to predict transmembrane helices in protein sequences. \
TMHMM 2.0 uses a hidden Markov model (HMM) to predict transmembrane helices in protein sequences.

**Install and run TMHMM**
```
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