SMITIDstruct (version 0.0.5)

createAViralPop: createAViralPop

Description

Create a new ViralPop object

Usage

createAViralPop(host_id, obs_time, seq, id_seq = "seq_ID",
  seq_value = "seq", prop = "prop", compact = FALSE)

Arguments

host_id

host ID which viral pop is observed

obs_time

time of the observation (numeric or date)

seq

a data.frame of sequences ID, sequences and counts

id_seq

column name containing the sequences ID

seq_value

column name containing the sequences

prop

column name containing the count of each sequences

compact

boolean, default FALSE, if TRUE will try group identicals sequences (not implemented yet)