p53: Example FASTA sequences

In csgillespie/HMMs: Hidden Markov models to analyse protein sequences

Description

The amino acid sequence of p53, mdm2, CBP, TAF15, FUS, EWS, Bnip3, NBR1, SQSTM1. To load a particular sequence, use the data function. For example, data(p53). For use in an analysis the data must be of class "hmm_fasta" which is done using the read_FASTA or read_FASTA_string functions. These functions also convert the amino acid sequences another code which depends on hydrophobicity (f=2), charge (f=3) or both (f=4). In the analysis you can combine proteins together to increase the information for the model. This is done using the combine_FASTA function.

Format

Vector of strings

Source

Obtained from an online database NCBI http://www.ncbi.nlm.nih.gov/protein

Examples

data(TAF15)
data(FUS)
f=4
x1 = read_FASTA_string(TAF15,f)
x2 = read_FASTA_string(FUS,f)
y = combine_FASTA(x1,x2)

csgillespie/HMMs documentation built on May 14, 2019, 12:11 p.m.