bcinflow09.par

=====================================================
=====================================================
General properties:
=====================================================
System: 0=Unix; 1=Windows:
0
Do checks? (0=no; 1=few; 2=yes):
1
Zufallsgenerator initialisieren:
-1
Zufallsgenerator post-proliferation initialisieren:
0
Angabe von Zeiten =1 (nicht Raten =0):
1
Was wird rausgeschrieben (0=alles; 1=wenig):
1
Hebe Ki67 hervor? (0=nein; 1=ja):
0
Mode of spatial output (0=GC 1=tumour ...):
0
Initial array dimension of CB:
17000
Initial array dimension of CC:
14000
Initial array dimension of TC:
1600
Initial array dimension of OUT:
2000
Initial array dimension of FDC:
250
Initial array dimension of STROMA:
400
Initial array dimension of BETA:
0


=====================================================
Space properties:
=====================================================
Dimension of lattice:
3
Lattice constant of space grid:
5.000000e+00
Radius of GC (microm):
1.600000e+02
Shape of reaction volume (0=sphere; 1=cube):
0
length of x-axis for vol-shape>1 (micron) (2D: hor; 3D: depth):
8.00000e+01
length of y-axis for vol-shape>1 (micron) (2D: vert; 3D: hor):
2.00000e+01
length of z-axis for vol-shape>1 (micron) (3D: vert):
1.000000e+02
Obstacles: 0=no; 1=wall; 2=wall+slits; 3=random:
0
Position of wall (% of volume height):
3.000000e-01
Width of wall (in points):
2
Number of slits:
5
Width of slits (in points):
1
Density of random obstacles (% of reaction volume):
3.000000e-01
Clustering of obstacles (% of random obstacles per obstacle):
3.330000e-03

=====================================================
Time and phases:
=====================================================
Time steps (in h):
2.0e-03
5.000000e-04
Beginning time (negative tolight=0) (in h):
0.0
24.00000e+00
End time (in h):
504.0
132.0000e+00
Time steps between output:
12000
48000
500
12000
125
Stop new BC influx to GC (in h):
96.0
#####
Start Mutation and Differentiation (in h):
72.0
Start Mutation independent of Differentiation (in h):
2.400000e+01
Start Output (in h):
72.0

=====================================================
Shape space:
=====================================================
Dimension of Shapespace (<11):
4
Use metric (1:N_mutation; 2:euclidian):
1
Number of antibody types:
10000
Number per Dimension (Fixed,int-type):
10
Total initial Number of presented Antigen Epitops (int-type):
1000
Number of initial Anitgen Peaks in its Shapespace (int-type):
1
Fix Epitop presentation (max 10 values):
3333
-1
Fraction of Ags (non-fixed Ag enter with same fraction):
-1
Use relative epitop weights in selection (=1):
0
Width of gaussian affinity weight function:
2.800000e+00
Amplitude of Gauss affinity weight function (0<a<=1):
1.000000e+00

=====================================================
Signals:
=====================================================
Take signals from file and fix dynamics (0 or 1)
0 0 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Diffusion constant of differentiation signal in microm^2/h:
2.000000e+02
Diffusion constant of chemotaxis signal in microm^2/h:
1.000000e+03
Diffusion constant of soluble antibodies in microm^2/h:
2.000000e+03
Diffusion constant of soluble antigen in microm^2/h:
2.000000e+03
Diffusion constant of Semapohrin SEMA4D in microm^2/h:
1.000000e+03
Signal diffusion mode (0:QUANTA; 1: EULER; 2: ADI):
2
Objects are transparent for signals (1:yes; 0: no):
1
Rate of diff2CC signal production/(h FDC):
0
-35.0e+00
Rate of CXCL13 production (in Mol/(h FDC)):
1.000000e-08
Semaphorin SEMA4D production in Mol per hour and FDC:
-1.000000e-08
Boundary for Differ2CC-Signal:
0.000000e+00
Boundary for CXCL13 (in Mol):
0.000000e+00
Boundary for antibodies (in Mol):
0.000000e+00
Boundary for antigen (in Mol):
0.000000e+00
Boundary of Semaphorin SEMA4D (in Mol):
0.000000e+00
Diffusion constant of CXCL12 (microm^2/hr):
1.000000e+03
Rate of CXCL12 production (Mol/(hr cell)):
40.000000e-08
Boundary for CXCL12 (Mol):
0.0
Lattice constant of signal grid (-1. for =space grid) (in microm):
-1.000000e+00

=====================================================
Chemokines:
=====================================================
Maximum weight of chemokine to random polarity:
10.000000e+00
Steepness of weight reduction with chemokine gradient l/mol :
1.000000e+10
Chemokine gradient of half weight mol/l :
2.000000e-11
Critical CXCL12 concentration for desensitisation [Mol]:
60.0e-10
80.0e-10
1.6e-10
Critical CXCL13 concentration for desensitisation [Mol]:
0.8e-10
0.7e-10
Critical CXCL12 concentration for resensitisation [Mol, -1 for none]:
40.0e-10
1.4e-10
Critical CXCL13 concentration for resensitisation [Mol, -1 for none]:
0.6e-10
Allow exchange of cells during movement (0,1):
1
Set polarity with specific distributions (0:no,1:gauss,2:cyster)
2

=====================================================
Nutrients:
=====================================================
Glucose consumption by viable cells (mol/sec) (in mol/sec):
-9.500000e-17
Oxygen consumption by viable cells (mol/sec) (in mol/sec):
-2.000000e-17
Glucose consumption by proliferating cells (mol/sec) (in mol/sec):
-9.500000e-17
Oxygen consumption by proliferating cells (mol/sec) (in mol/sec):
-2.000000e-17
Boundary for glucose (Mol) (in Mol):
0.000000e+00
Boundary for oxygen (Mol) (in Mol):
0.000000e+00
Diffusion constant of soluble glucose (microns^2/min) (in micron^2/min):
4.146000e+04
Diffusion constant of soluble oxygen (microns^2/min) (in micron^2/min):
1.464000e+05
Diffusion constant of glucose in tissue (microns^2/min) (in micron^2/min):
6.300000e+03
Diffusion constant of oxygen in tissue (microns^2/min) (in micron^2/min):
1.050000e+05
Critical nutrient product concentration for necrosis (Mol^2) (in Mol^2):
2.500000e-08
Define a constant glucose field (<0:no; >0:times resting value):
-10
Define a fixed glucose gradient field (0:no; 1:yes):
0
Define fixed glucose gradient minimum value (mM):
2.0
Define fixed glucose gradient minimum value (mM):
12.0

=====================================================
antibodies:
=====================================================
Resolution of systemic antibodies in affinity bins (0=no systemic antibodies):
0
Production rate of systemic antibodies by output population (mol per hour and cell):
1.000000e-17
Antibody degradation half time (days):
3.000000e+01
Exponent of lowest affinity dissociation constant of immune complex (1/Mol):
5.500000e+00
Exponent of highest affinity dissociation constant of immune complex (1/Mol):
9.5
1.050000e+01
Half time of plasma cell differentiation to antibody producing cell (hours):
2.400000e+01
Number of GC generating antibody producing plasma cells:
1.000000e+03
Blood volume (l):
1.000000e-02
Inject antibodies: concentration (mol/l; <=0 for none):
-5.00000e-08
Inject antibodies: time of administration (hours):
144.0
Inject antibodies: exponent of affinity in l/mol:
7.100000e+00
Inject antibodies: index in affinityspace (-1 to use exponent of affinity):
-1

=====================================================
Cell tracking:
=====================================================
Total number of tracked cells (0 = use numbers for each cell type):
0
Number of tracked CB:
0
Number of tracked CC:
0
Number of tracked output cells:
0
Number of tracked TC:
0
Number of tracked betacells:
0
Tracking start time (hours):
144.000000e+00
Tracking end time (hours):
154.000000e+00
Tracking time interval (hours):
1.666667e-01
Number of intervals for the speed-distribution:
100
Width of one interval for speed-distribution (micron/min):
1.000000e+00
Number of intervals for the turning-angle-distribution:
18
Width of one interval for turning-angle-distribution (degree):
10.0
Number of intervals for the elongation-distribution:
100
Width of one interval for elongation-distribution (axis-ratio):
1.000000e-01

=====================================================
Cell photoactivation:
=====================================================
Do photoactivation of cells (0=no, 1=yes):
0
Start photoactivation at time (hours):
144.0
Coordinates of the photoactivation area (x,y,z in microns):
130
130
210
Size of the photoactivation area (x,y,z in microns):
60
60
30
Use DEC205 receptors on B cells (0=no, 1=yes):
0
Time of setting DEC205 receptors on B cells (hours):
30.0
Fraction of DEC205+/+ B cells:
1.500000e-01
Inject anti-DEC205-OVA for BCR independent activation (0=no, 1=yes):
0
Time of anti-DEC205-OVA injection (hours):
9.600000e+01
# this is day 6 in Gabriels experiment
Duration of anti-DEC205-OVA activity (hours, -1 for one selection):
-24.0
Duration of TC-BC-contact upon DEC205OVA activation (hours, 0 for unchanged):
0.0
Increase number of TCs upon DEC205OVA activation (factor of normal):
1.0
Increase number of BC divisions upon DEC205OVA activation (factor of normal):
1.0
Induce CB differentiation upon DEC205OVA activation (0: no; 1: yes):
0
Probability of CB to OUT differentiation if DEC205OVA is bound (<=0 for none):
0.1
Antigen acquired via DEC205 is retained (0: no; 1: yes):
0

=====================================================
Cells generalities:
=====================================================
Macrophagocytosis of necrotic cells:
9.630000e+01
Duration for establishing adhesion binding (min):
1.666670e-01

=====================================================
Centroblasts:
=====================================================
------------------------------------------------------------------------
CB number and size
------------------------------------------------------------------------
Total Number of initial B-Cells:
0
#####
60
Rate of new BC flux into the GC (0=none) [# of cells/hr]:
2.0
#####
Smoothness width of switch-off of new BC influx (-1=no) [hr]:
6.0
Centroblast radius (microm):
2.4500000e+00
Fix initial Centroblast position (max 10 values):
-1
#####
Rate of cell growth (h):
3.000000e+00

------------------------------------------------------------------------
CB antibody type
------------------------------------------------------------------------
Total Number of initial B-Cells types:
3
#####
Seeder cells have a SS distance to antigen of more than (-1: no limit) [metric]:
-1
Seeder cells have a SS distance to antigen of less than (-1: no limit) [metric]:
-1
Fix initial Centroblast distribution (max 10 values):
-1
3653
3545
3455
4436
4373
-1
#####

------------------------------------------------------------------------
CB motility
------------------------------------------------------------------------
Duration of CXCR4 expression in hours (-1 for no downregulation):
-6.0
Maximum adhesion force of CB (% of full stickness):
0.000000e+00
Mean cell velocity (in microns/min):
7.5
8.000000e+00
Persistence of CB polarity (time gap in min) (h):
1.5
1.2400000e+00
Diffusion constant of CB in microm^2/h:
-5.000000e+00
Modus of velocity (1=random; 2=1+weights; 3=polarity-coupled; 4=adhesion):
1
Number of velocity states:
1
Persistence of v-states in min:
-1.000000e+00
Factor of velocity reduction from v_state max to min:
1.000000e+00
Surface tension as cytosol diffusion in microns^2/h:
-5.000000e+00
Surface tension as fragment velocity in microns/min:
4.000000e+00
CB elongation during active move (% of CB radius):
1.000000e+00
CB elongation for half maximum reshaping force (in CB radii):
2.000000e+00
Smoothness of CB movement (# of timesteps for dx=a move, default 1):
1.000000e+00
Tolerance for distance to barycenter for movement to target point in %:
3.000000e-01
Half tolerance at deformation of (0.01 - infty):
1.000000e-02

------------------------------------------------------------------------
CB division
------------------------------------------------------------------------
Maximal distance for CB proliferation (microm):
0.000000e+00
Fraction of volume up to which proliferation is possible (1=no restriction):
1.000000e+00
Proliferation rate (h):
9.0
8.0
Duration of CB cell cycle phase G1 (hours):
2.5
3.0
#####
2.0
Duration of CB cell cycle phase S (hours):
1.5
#####
1.0
Duration of CB cell cycle phase G2 (hours):
2.5
3.0
#####
2.5
Duration of CB cell cycle phase M (hours):
0.5
Duration of CB cell cycle phase G0 (hours):
0.0
Width of Gaussian variation of phases (fraction of average duration):
1.0
Number of required cell cycles before differentiation (cell cycle times) (h):
2.0
Mode of division number in expansion phase (0: calculate; 1: as later; 2: code specified):
3
#####
Fixed number of divisions in expansion phase (chose 3 in the mode of division above):
12
#####
10
Transfer CC delay of differentiation to CB cycle time (1: yes; 0: no):
1

------------------------------------------------------------------------
Asymmetric division of retained antigen
------------------------------------------------------------------------
Keep loaded antigen after BC selection for recycling (1:yes; 0: no):
1
Divide antigen asymmetrically on daughter BC (1: 100%; 0: no):
0.72
1.0
Distribute antigen asymmetric (0.5 < polarity index < 1.0):
1.0
Width of smooth distribution around the polarity index [% of PI]:
0.04
Antigen-retaining daughter BCs differentiate to output (1: yes; 0: no):
1
#also set other way of output generation to zero and recycling to 100%
Retained antigen is deleted in fresh CC (1:yes; 0:no):
1
CC differentiated from antigen-loaded CB directly interact with TFH (1: yes; 0: no):
0
Antigen pre-loaded BCs suppress mutation (1:yes; 0: as others):
1
BC are pre-loaded with antigen at start (-1:no; # of antigen portions):
-1


------------------------------------------------------------------------
CB mutation
------------------------------------------------------------------------
Mutation probability:
0.5
Mutation probability after TC selection (-1: for unchanged; or [0..1]):
0.0
Mutation probability after DEC205-competent TC selection (-1: for same; [0..1]):
-1
Affinity-dependent mutation upon TC contact (<=0: none; affinity-exponent):
1.0

------------------------------------------------------------------------
CB differentiation
------------------------------------------------------------------------
CB use receptors for signal-induced differentiation (0=no 1=ss 2=dyn):
0
Bound-receptor-threshold for CB-differentiation (fraction):
5.000000e-01
Dissociation constant for CB-differentiation signal (quanta or h):
1.000000e+00
Binding constant for CB-differentiation signal (h):
1.000000e+00
Total number of receptors on CB:
1.000000e+00
Rate for differentiation of centroblasts to centrocytes (h):
0.1
4.5
0.5
Smooth onset of CB differentiation (1=yes, 0=no):
1
Width of smooth onset of CB differentiation (hours):
12.0
Probability of CB to OUT differentiation (<=0 for none):
0.0
0.23
Exit of OUT cells towards T zone (1: yes; 0: random walk):
1

=====================================================
Blasts 2:
=====================================================
Total Number of initial blast2-Cells:
0
Blast2 radius (microm):
5.000000e+00
Maximal distance for blast2 proliferation (microm):
1.000000e+00
Diffusion constant of blast2 in microm^2/h:
3.000000e+01
Fix initial blast2 position (max 10 values):
-1
Blast2 proliferation (h):
1.000000e+01
Blast2 cell growth (h):
1.000000e+00
Blast2 tolerance for distance to barycenter for fragment diffusion %:
3.000000e-01
Blast2 half tolerance at deformation of (0.01 - infty):
1.000000e-02

=====================================================
Centrocytes:
=====================================================
------------------------------------------------------------------------
CC size
------------------------------------------------------------------------
Rate of cell shrinking (h):
2.000000e+00

------------------------------------------------------------------------
CC motility
------------------------------------------------------------------------
Mean CC velocity (in microns/min):
7.5
8.000000e+00
Diffusion constant of CC/out in microm^2/h:
-1.500000e+01
Persistence of CC polarity (time gap in min):
1.5
1.2400000e+00
Modus of CC velocity (1=random; 2=1+weights; 3=polarity-coupled; 4=adhesion):
1
Number of CC velocity states:
1
Factor of CC velocity reduction from v_state max to min:
1.000000e+00
Persistence of v-states in min:
-1.000000e+00
Duration of CXCR5 expression in hours (-1 for until FDC-contact):
-6.0

------------------------------------------------------------------------
CC selection at FDC
------------------------------------------------------------------------
CC need to see FDC before selection (1=yes, 0=no)?:
1
Ignore affinity when binding antigen on FDCs (-1: no; mean binding probability):
-1.0
Time gap between affinity tests (-1=move, in h):
0.02
0.05
2.000000e-01
Duration of motility suppression for each affinity test (-1=none, hr):
-1
0.03
Rate of positive selection at FDCs (h):
0.05
0.1
Probability of signalling during functional CC-FDC contact:
1.0
CC collect antigen by serial FDC encounters (1=yes, 0=no):
1
Duration of CC collection of antigen by serial FDC encounters (h):
0.7
2.0
2.5
3.0
4.0
2.0
Probability to kill BCs that failed to collect antigen (-1: for always):
-1
Present collected Ag to TC [0=all; 1=max-specific; 2=TC specificity]:
0
Reset amount of collected antigen after collection-phase (antigen portions; <=0: no reset):
-1

------------------------------------------------------------------------
Antibody feedback to antigen presentation
------------------------------------------------------------------------
Ag presenting Ab adapt to PC-produced Ab-quality (1=yes, 0=no)
0
Initial soluble Ab-affinity for antigen (0..1, -1 for seeder-affinity):
-1

------------------------------------------------------------------------
CC selection at TFH
------------------------------------------------------------------------
Positive selection by TC-CC-interaction (0=no, 1=yes):
1
Negative selection by TC-CC-interaction (0=no, 1=yes):
1
Duration of TC-CC-interaction in hours:
0.600000e+00
Minimum duration of TC-CC-polarisation for CC-rescue in hours:
0.500000e+00
T-Cell-Selection probability:
1.000000e+00

------------------------------------------------------------------------
CC differentiation to OUTPUT
------------------------------------------------------------------------
Rate of selected CC-differentiation (h):
0.1
1.0e+00
Delay of selected CC-differentiation (hours; -1: none):
6.0
-1.0
Delay of selected CC-differentiation upon DEC-binding (hours; -1: none):
-1.0
Output probability toward Antibody production:
0.0
0.4
0.55
2.000000e-01
Output probability of DEC205-OVA activated BC toward Antibody production:
0.0
Smooth onset of differentiation to output (1=yes, 0=no):
1
Width of smooth onset of differentiation to output (hours):
12.0
Delay of differentiation to output after selection (hours; -1: none):
-5.0

----------------------------------------------------------------------
CC: pMHC dependent division of BC induced by TFH
----------------------------------------------------------------------
Use pMHC-dependent TFH-induced number of divisions (0,1):
1
pMHC-dependent division number Hill: standard (P_0):
2
pMHC-dependent division number Hill: minimum (P_min):
1.0
pMHC-dependent division number Hill: maximum (P_max):
6.000000e+00
pMHC-dependent division number Hill: Hill-coefficient (n_P):
2.000000e+00
pMHC-dependent division number Hill: half (K_P; -1 for calc with A_0):
9.000000e+00
pMHC-dependent division number Hill: pMHC for 2 divisions (A_0):
3.000000e+00

----------------------------------------------------------------------
CC apoptosis
----------------------------------------------------------------------
Rate of apoptosis (h):
1.0
10.0e+00
Life time of FDC selected CC (hours, -1=infinite):
-1
3.0
Ignore apoptotic CC in cell number analysis (0=no; 1=yes):
0
Motility mode of apoptotic CC (0=no; 1=CXCL13; 2=random; 3=CXCL12):
1
3
Half life of CXCL12 sensitivity of apoptotic CC before random walk (hours, -1:none):
0.0
0.15
Rate of macrophage transport of dead cells (h):
6.0
0.5
4.000000e-02

=====================================================
OUTPUT cells
=====================================================
WHAT IS THIS FOR ???
Antibody production rate in Mol per hour and output cell:
-3.000000e-08
Mean OUT velocity (in microns/min):
3.0
Persistence of OUT polarity (time gap in min):
0.75
1.0

====================================================================
BC class switching:
====================================================================
Do class switch (0=no, 1=at TFH-selection, 2=at division):
0
The switch matrix contains the probabilities to switch
from class <line-number> to class <column-number> with
Ig_classes={IgM,IgG,IgE,IgA}.
Class switch probabilities (sum of each line must be 1):
0.95         0.04         0.01         0.0
0.0          1.0          0.0          0.0
0.0          0.0          1.0          0.0
0.0          0.0          0.0          1.0
BCR expression level of IgE BCs (percentage of normal):
0.3
Cell cylce time of IgE BCs (factor; 1:as normal):
1.0
1.2
Number of IgE BC divisions (factor; 1:as normal):
1.0
1.3
Failure prob of IgE-CC CXCR5 upregulation (0:no; >0:CXCR5 down; <0:CXCR4 up):
-0.75
0.8
0

=====================================================
T cells:
=====================================================
Number of initial TC:
250
1500
Radius of TC in microns:
2.500000e+00
Tendency for TC to stay in the LZ (weight in 0..1):
0.1
Velocity of TC in microns/min:
10.000000e+00
Persistence of polarity of TC in min:
1.700000e+00
Velocity of TC in interaction with CC in microns/min:
0.000000e+00
------------------------------------------------------------------------
TC division
------------------------------------------------------------------------
TC divide (0=no; 1=yes):
0
TC doubling time (hours, <0 for mechanistic triggering of division):
24.0
Duration of TC cell cycle (hours):
10.0
Width of Gaussian variation of cell cycle (fraction of average duration):
0.5
Number of required cell cycles before return to quiescence (cell cycles):
1.0
Maximal distance for TC proliferation (microm):
0
=====================================================
Follicular dendritic cells:
=====================================================
Total number of FDCs:
200
Length of FDC arms (microm):
40
Fix FDC position (max 100 values):
-1
Percentage of FDCnetwork in GC volume:
0.5
6.667000e-01
FDC dendrites treated transparent (yes=1; no=0):
1
FDC signal production mode (1: Vesikel; 0: continuous):
0
Presented Ag per FDC in units of threshold (-1: no consumption):
3000
5.000000e+02
Ag distribution per FDC fragment (0: as ag_fraction; 1: 1 random Ag with prob=ag_fraction):
0
Ag detection on FDC fragment (0: highest affinity Ag; 1: highest Ag amount):
0
Ag saturation per FDC-fragment in units of threshold (1: constant binding probability):
2.000000e+01
Threshold Ag-concentration for binding CC (in Mol):
1.000000e-08
k_on for building immune complex (in /(Mol s); -1 for no binding):
1.000000e+06
k_off for dissociation of immune complex (in /s):
1.000000e-03
File-Output-Restrictions:
-1

=====================================================
beta-cells:
=====================================================
Total Number of initial betacells:
0
betacell radius (microm):
5.000000e+00
betacell cell cycle (hours) (-1 for none):
-1.000000e+00
Maximal distance for betacell proliferation (microm):
1.000000e+00
betacell inverse growth rate (hours):
1.000000e+00
betacell inverse shrinkage rate (hours):
1.000000e+00
Maximum adhesion force of betacells (% of full stickness):
0.000000e+00
Persistence of betacell polarity (time gap in min):
1.000000e-01
Mean betacell velocity (in microns/min):
100.000000e-01
Modus of betacell velocity (1=random; 2=1+weights; 3=polarity-coupled; 4=adhesion):
1
Number of betacell velocity states:
1
Factor of betacell velocity reduction from v_state max to min:
1.000000e+00
Persistence of betacell v-states in min:
-1.000000e+00
Surface tension as betacell fragment velocity in microns/min:
100.000000e-01
betacell elongation during active move (% of radius):
1.000000e+00
betacell elongation for half maximum reshaping force (in radii):
2.000000e+00
betacell tolerance for distance to barycenter for movement to target point in %:
2.000000e-01
Half betacell tolerance at deformation of (0.01 - infty):
2.000000e-01
Smoothness of betacell movement (# of timesteps for dx=a move, default 1):
1.000000e+00
Fix initial betacell position:
-1




=====================================================
Sequence space:
=====================================================
Use sequence space (1/0):
0
Type of affinity function : 0= standard (saham's)  1= normalized to max_affinity_cluster 2= sliding windows of size max_affinity_cluster:
1
Length of sequences:
50
Specifity of sequences affinity (double R):
8
Optimum affinity cluster size (affinity doesn't increase beyond it):
25
Number of Initial Antigen sequences (int-type):
10
Maximum Hamming distance between antigens:
10
Minimum Hamming distance between antigens:
1
Fix Antigen Sequence presentation (max 1000 values):
01111111111111111111111111111111111111111111111111
10111111111111111111111111111111111111111111111111
11011111111111111111111111111111111111111111111111
11101111111111111111111111111111111111111111111111
11110111111111111111111111111111111111111111111111
11111011111111111111111111111111111111111111111111
11111101111111111111111111111111111111111111111111
11111110111111111111111111111111111111111111111111
11111111011111111111111111111111111111111111111111
11111111101111111111111111111111111111111111111111
-1
Fix initial Repertoire distribution (max 1000 values):
11110111011010111010101011111111111111110101010111
-1
#####
Maximum Initial Hamming distance between BCRs:
25
Minimum affinity of initial BCRs to Antigens:
0.001
Maximum affinity of initial BCRs to Antigens:
0.9

Fix initial Repertoire distribution for T cells:
11100010111001111111011110111101111110001100000011
-1
Maximum Initial Hamming distance between TCRs:
25
Minimum affinity of initial TCRs to Antigens:
0.001
Maximum affinity of initial TCRs to Antigens:
0.9