Mercurial > repos > bioinformatics_lab_ufsc > epibuilder
diff test-data/online-epifinder.txt @ 0:ef26009cd70a draft
Uploaded version 1.1
| author | bioinformatics_lab_ufsc |
|---|---|
| date | Thu, 25 Nov 2021 01:26:36 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/online-epifinder.txt Thu Nov 25 01:26:36 2021 +0000 @@ -0,0 +1,70 @@ + +---- Running Parameters ---- +BepiPred-2.0 Threshold : 0.6 +Min epitope length : 10 +Max epitope length : 30 + +---- Softwares Threshold ---- +Emini : 0.8 +Parker : 0.8 +Chou Fosman : 0.8 +Karplus Schulz : 0.8 +Kolaskar : 0.8 + +---- Proteomes ---- +Alias File +test_proteom /usr/local/bioinfo/stingrayGalaxy/tools/stingray/epifinder/test-data/proteom.fasta + +---- Blast ---- +Identity : 90.0 +Cover : 90.0 +Word size : 4 +Task blastp-short: blastp-short + +---- Stats ---- +Processed proteins : 6 +NGlycosylated proteins : 0 +Identified epitopes : 2 +N-glycosylated epitopes: 0 + +---- Protein Summary ---- +Id Epitopes N-Glyc +4WFF_B 1 0 +5BVP_A 0 0 +4XAK_A 0 0 +4WFF_A 1 0 +5C0N_A 0 0 +4Z5R_A 0 0 + +---- Epitopes list ---- +N Id Epitope Start End N-Glyc N-Glyc-Count N-Glyc-Motifs Length MW(kDa) I.P Hydropathy All Matches Cover Avg Cover BepiPred2 Emini Parker Chou Fosman Karplus Schulz Kolaskar test_proteom_count test_proteom_acc test_proteom_count test_proteom_id +1 4WFF_A FLKWHVPPELVRVLSA 149 165 N 0 - 16 1.89 8.75 0.54 0.06 0.58 0.64 0.78 -1.78 0.83 0.96 1.11 2 4WFF_A Chain A of Human TRAAK K+ channel in a K+ bound nonconductive conformation,4WFF_B Chain B of Human TRAAK K+ channel in a K+ bound nonconductive conformation 2 4WFF_B(100.00,100.00),4WFF_A(100.00,100.00) +2 4WFF_B AIFLKWHVPPELVRVLSAML 149 169 N 0 - 20 2.32 8.80 1.03 0.05 0.54 0.64 0.67 -2.18 0.80 0.95 1.11 2 4WFF_A Chain A of Human TRAAK K+ channel in a K+ bound nonconductive conformation,4WFF_B Chain B of Human TRAAK K+ channel in a K+ bound nonconductive conformation 2 4WFF_B(100.00,100.00),4WFF_A(100.00,100.00) + +---- Epitopes topology ---- +N Id Method Threshold Avg Score Cover Epitope Start End N-Glyc N-Glyc-Count N-Glyc-Motifs Length kDa I.P Avg Hydropathy Avg Cover +1 4WFF_A BepiPred-2.0 0.60 0.64 - FLKWHVPPELVRVLSA 149 165 N 0 - 16 1.89 8.75 0.54 0.58 + Emini 0.80 0.78 0.38 ...EEEE.EE...... + Parker 0.80 -1.78 0.06 .....E.......... + Chou Fosman 0.80 0.83 0.44 ...EEEEEEE...... + Karplus Schulz 0.80 0.96 1.00 EEEEEEEEEEEEEEEE + Kolaskar 0.80 1.11 1.00 EEEEEEEEEEEEEEEE + All matches - - 0.06 .....E.......... + N-Glyc - - - ................ + Hydropathy - 0.54 - ++---+---++-++-+ +2 4WFF_B BepiPred-2.0 0.60 0.64 - AIFLKWHVPPELVRVLSAML 149 169 N 0 - 20 2.32 8.80 1.03 0.54 + Emini 0.80 0.67 0.30 .....EEEE.EE........ + Parker 0.80 -2.18 0.05 .......E............ + Chou Fosman 0.80 0.80 0.35 .....EEEEEEE........ + Karplus Schulz 0.80 0.95 1.00 EEEEEEEEEEEEEEEEEEEE + Kolaskar 0.80 1.11 1.00 EEEEEEEEEEEEEEEEEEEE + All matches - - 0.05 .......E............ + N-Glyc - - - .................... + Hydropathy - 1.03 - ++++---+---++-++-+++ +Generated files: + ./online-epifinder-parameters.txt + ./online-epifinder-protein-summary.tsv + ./online-epifinder-topology.tsv + ./online-epifinder-epitope-detail.tsv + ./online-epifinder-scores.tsv + ./online-epifinder-epitopes-fasta.fasta \ No newline at end of file