Difference between revisions of "Fabry:Sequence alignments (sequence searches and multiple alignments):Results"
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[[File:Fabry_animation.gif]] |
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− | Above you can see a histogram of the distribution of the E-values, |
+ | Above you can see a histogram of the distribution of the E-values, for the search performed with different methods. |
The R Script is based on Andrea's [[ARSA_search_protocol | R Script psiBlast.evalueHist.Rscript]] |
The R Script is based on Andrea's [[ARSA_search_protocol | R Script psiBlast.evalueHist.Rscript]] |
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Revision as of 08:20, 5 May 2012
Please see Task 2 for our scripts and line of action on this topic.
Contents
Sequence searches
Blast
Number of hits with Evalue < 0.003: 663
Psi-Blast
HHblits
2 iterations - default
Number of hits with Evalue < 0.003: 326
8 iterations
Number of hits with Evalue < 0.003: 729
Comparison
Comparing the hits
Venn diagrams created with Oliveros, J.C. (2007) VENNY. An interactive tool for comparing lists with Venn Diagrams.
Comparing the Evalues
![Fabry animation.gif](/wiki/images/0/08/Fabry_animation.gif)
Above you can see a histogram of the distribution of the E-values, for the search performed with different methods. The R Script is based on Andrea's R Script psiBlast.evalueHist.Rscript
As one can clearly see, the number of significant hits in the Psi-Blast search exceeds the number of hits in any of the other two searches by far. Also this histogram looks more like a normal distribution with mean -80, while the histograms of the BLAST and the HHBlits search do not, but rather tend towards the zero point. The least hits are generated by the "ordinary" BLAST search (663), the Psi-BLAST search finds the ten-fold number (6868). Thus in respect to the E-values I would prefer using Psi-Blast.