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Commit 3c40dd9a authored by Marco Del Tufo's avatar Marco Del Tufo
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Update search-domain-services.md

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1 merge request!40SSDM-13578 : 2PT : Database and V3 Implementation - include the new AFS "free"...
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...@@ -108,22 +108,14 @@ of a data set or in a sequence stored as a property of an experiment, a ...@@ -108,22 +108,14 @@ of a data set or in a sequence stored as a property of an experiment, a
sample or a data set. In any case the following informations can be sample or a data set. In any case the following informations can be
retrieved for each match: retrieved for each match:
|BLAST output column|Access in Java|Description| |BLAST output column|Access in Java |Description |
|--- |--- |--- | |-------------------|----------------------------------------------------------------------------------------|-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|
|score|SearchDomainSearchResult.getScore().getScore()|Score. See http://homepages.ulb.ac.be/~dgonze/TEACHING/stat_scores.pdf for an explanation of score, bit-score and evalue.| |score |SearchDomainSearchResult.getScore().getScore() |=HYPERLINK("http://homepages.ulb.ac.be/~dgonze/TEACHING/stat_scores.pdf","Score. See http://homepages.ulb.ac.be/~dgonze/TEACHING/stat_scores.pdf for an explanation of score, bit-score and evalue.")|
|bitscore|SearchDomainSearchResult.getScore().getBitScore()|| |bitscore |SearchDomainSearchResult.getScore().getBitScore() | |
|evalue|SearchDomainSearchResult.getScore().getEvalue()|| |evalue |SearchDomainSearchResult.getScore().getEvalue() | |
|sstart|SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getSequenceStart()|Start of alignment in |sstart |SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getSequenceStart() |Start of alignment in found sequence |
found sequence| |send |SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getSequenceEnd() |End of alignment in found sequence |
|send|SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getSequenceEnd()|End of alignment in |qstart |SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getQueryStart() |Start of alignment in search string. |
found sequence| |qend |SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getQueryEnd() |End of alignment in search string. |
|qstart|SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getQueryStart()|Start of alignment in |mismatch |SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getNumberOfMismatches()|Number of mismatches. |
search string.| |gaps |SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getTotalNumberOfGaps() |Total number of gap. |
|qend|SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getQueryEnd()|End of alignment in
search string.|
|mismatch|SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getNumberOfMismatches()|Number of mismatches.|
|gaps|SearchDomainSearchResult.getResultLocation().getAlignmentMatch().getTotalNumberOfGaps()|Total number of gap.|
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