Predict Antimicrobial Peptides
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Documentation for package ‘ampir’ version 1.1.0
Help Pages
| aaseq_is_valid | Check protein sequences for non-standard amino acids |
| calculate_features | Calculate a set of numerical features from protein sequences |
| calc_amphiphilicity | Calculate amphiphilicity (or hydrophobic moment) |
| calc_hydrophobicity | Calculate the hydrophobicity |
| calc_mw | Calculate the molecular weight |
| calc_net_charge | Calculate the net charge |
| calc_pI | Calculate the isoelectric point (pI) |
| calc_pseudo_comp | Calculate the pseudo amino acid composition |
| chunk_rows | Determine row breakpoints for dividing a dataset into chunks for parallel processing |
| df_to_faa | Save a dataframe in FASTA format |
| predict_amps | Predict the antimicrobial peptide probability of a protein |
| read_faa | Read FASTA amino acids file into a dataframe |
| remove_nonstandard_aa | Remove non standard amino acids from protein sequences |
| remove_stop_codon | Remove stop codon at end of sequence |