read_domtblout: Read a file created through the '–domtblout' option

In rhmmer: Utilities Parsing 'HMMER' Results

Description

Read a file created through the '—-domtblout' option

Usage

read_domtblout(file)

Arguments

file

Filename

Value

data.frame

Examples

file <- system.file('extdata', 'example.domtblout.txt', package='rhmmer')
read_domtblout(file)

Example output

# A tibble: 70 x 23
   domain_name domain_accession domain_len query_name query_accession  qlen
   <chr>       <chr>                 <int> <chr>      <chr>           <int>
 1 Rer1        PF03248.12              171 AT2G18240… -                 221
 2 Rer1        PF03248.12              171 AT2G18240… -                 221
 3 DUF4220     PF13968.5               352 AT5G45530… -                 798
 4 DUF594      PF04578.12               55 AT5G45530… -                 798
 5 DEAD        PF00270.28              176 AT1G27880… -                 890
 6 Helicase_C  PF00271.30              111 AT1G27880… -                 890
 7 Helicase_C  PF00271.30              111 AT1G27880… -                 890
 8 ResIII      PF04851.14              171 AT1G27880… -                 890
 9 ResIII      PF04851.14              171 AT1G27880… -                 890
10 TIR         PF01582.19              176 AT1G56520… -                 897
# … with 60 more rows, and 17 more variables: sequence_evalue <dbl>,
#   sequence_score <dbl>, sequence_bias <dbl>, domain_N <int>, domain_of <int>,
#   domain_cevalue <dbl>, domain_ievalue <dbl>, domain_score <dbl>,
#   domain_bias <dbl>, hmm_from <int>, hmm_to <int>, ali_from <int>,
#   ali_to <int>, env_from <int>, env_to <int>, acc <dbl>, description <chr>

rhmmer documentation built on May 2, 2019, 1:03 p.m.