class Bio::Blast::Report::Hsp

Bio::Blast::Report::Hsp

Attributes

align_len[RW]

Length of the alignment used

bit_score[RW]

Score (in bits) of HSP

density[RW]

Score density

evalue[RW]

E-value of HSP

gaps[RW]

Number of gaps in HSP

hit_frame[RW]

Translation frame of subject

hit_from[RW]

Start of HSP in subject

hit_to[RW]

End of HSP

hseq[RW]

Alignment string for subject (with gaps)

hsp[R]
identity[RW]

Number of identities in HSP

midline[RW]

Formating middle line

mismatch_count[RW]

Available only for '-m 8' format outputs.

num[RW]

HSP number

pattern_from[RW]

Start of PHI-BLAST pattern

pattern_to[RW]

End of PHI-BLAST pattern

percent_identity[RW]

Available only for '-m 8' format outputs.

positive[RW]

Number of positives in HSP

qseq[RW]

Alignment string for the query (with gaps)

query_frame[RW]

Translation frame of query

query_from[RW]

Start of HSP in query

query_to[RW]

End of HSP

score[RW]

Sscore of HSP

Public Class Methods

new() click to toggle source
# File lib/bio/appl/blast/report.rb, line 318
def initialize
  @hsp = {}
end