Package org.veupathdb.lib.blast.tblastn.fields
See: Description
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Class Summary Class Description CompBasedStatsTN -comp_based_stats <String>Use composition-based statistics:Dord: default (equivalent to 2)0orForf: No composition-based statistics1: Composition-based statistics as in NAR 29:2994-3005, 20012orTort: Composition-based score adjustment as in Bioinformatics 21:902-911, 2005, conditioned on sequence properties3: Composition-based score adjustment as in Bioinformatics 21:902-911, 2005, unconditionally
2ScoringMatrixTN -matrix <String>Scoring matrix name (normally BLOSUM62)SoftMaskingTN -soft_masking <Boolean>Apply filtering locations as soft masksDefault =falseTBlastNTask -task <String>Permissible values:tblastn
tblastn-fast
WordSizeTBlastN -word_size <Integer, >=2>Word size for wordfinder algorithm -
Enum Summary Enum Description CompBasedStatsTNValue ScoringMatrixTNType TBlastNTaskValue -
Object Summary Object Description Companion -
Interface Summary Interface Description SegTN -seg <String>Filter query sequence with SEGFormat:yes
"window locut hicut"
no (to disable)
12 2.2 2.5