add reciprocity models

alon_yeast_transcription/config_gof_simulation_yeast_transcription_reciprocity.txt

@@ -0,0 +1,27 @@
+# Generated by: /home/stivala/EstimNetDirected/scripts/estimnetdirectedEstimation2simulationConfig.sh config_yeast_transcription.txt estimation_yeast_transcription.out stats_gof_simulation_yeast_transcription_reciprocity.txt simulation_gof_yeast_transcription_reciprocity.txt
+# At:  Mon Aug 3 08:40:57 CEST 2020
+# On:  Linux icsmaster01 3.10.0-514.6.2.el7.x86_64 #1 SMP Thu Feb 23 03:04:39 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
+# arclistFile =  yeast_transcription_arclist.txt
+# observedStatsFilePrefix = 
+numNodes = 688
+useTNTsampler = True # use the tie-no-tie sampler
+sampleSize = 100 #number of network samples to take from simulation
+interval = 100000 # interval (iterations) between samples
+burnin = 1000000 # number of iterations to throw away before first sample
+outputSimulatedNetworks = True
+#binattrFile = 
+#catattrFile =
+# Filename of file to write statistics to
+statsFile = stats_gof_simulation_yeast_transcription_reciprocity.txt
+# Prefix of simulated networks in Pajek .net file format
+simNetFilePrefix = simulation_gof_yeast_transcription_reciprocity
+structParams = {
+AltInStars = 0.3358185,
+AltKTrianglesT = 2.390454,
+AltOutStars = 2.636652,
+AltTwoPathsT = -0.1486661,
+Arc = -10.09292,
+Reciprocity = -10.80019,
+Sink = 3.002736,
+Source = 1.949498}
+

alon_yeast_transcription/config_yeast_transcription.txt

@@ -93,9 +93,8 @@ simNetFilePrefix = sim_yeast_transcription
 # Structural parameters
 #
 
-structParams =  { AltInStars, AltOutStars, Sink, Source,
-                 AltTwoPathsTD,
-                 AltKTrianglesT, AltKTrianglesC}
+structParams =  { Reciprocity, AltInStars, AltOutStars, Sink, Source,
+                 AltTwoPathsT, AltKTrianglesT }
 
 #
 # Attribute parameters