PGS: Population-based Genome Structure modeling
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PGS: Population-based Genome Structure modeling
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Index
A
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B
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C
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E
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F
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G
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I
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K
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M
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P
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R
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S
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T
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U
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V
A
applyed() (alab.contactmatrix method)
assignDomain() (alab.contactmatrix method)
B
buildindex() (alab.contactmatrix method)
C
cache_coordinates() (alab.tadmodel method)
cgstep() (alab.tadmodel method)
columnsum() (alab.contactmatrix method)
CondenseChromosome() (alab.tadmodel method)
contactmatrix (class in alab)
E
evaluateRestraints() (alab.tadmodel method)
F
findBinIndex() (alab.structuresummary method)
fmaximization() (alab.contactmatrix method)
fmaxScaling() (alab.contactmatrix method)
G
genome (alab.contactmatrix attribute)
getABCopyMeanBeadRadialPosition() (alab.structuresummary method)
getAveragePairwiseDistance() (alab.structuresummary method)
getBeadRadialPosition() (alab.structuresummary method)
getChromosomeRadialPosition() (alab.structuresummary method)
getContactMap() (alab.structuresummary method)
getDomainMatrix() (alab.contactmatrix method)
getfmax() (alab.contactmatrix method)
getICP() (alab.contactmatrix method)
getPairDistance() (alab.structuresummary method)
I
identifyInterOutliersCutoff() (alab.contactmatrix method)
idx (alab.contactmatrix attribute)
iterativeFmaxScaling() (alab.contactmatrix method)
K
krnorm() (alab.contactmatrix method)
M
makeDomainLevelMatrix() (alab.contactmatrix method)
makeIntraMatrix() (alab.contactmatrix method)
matrix (alab.contactmatrix attribute)
mdstep() (alab.tadmodel method)
mdstep_withChromosomeTerritory() (alab.tadmodel method)
modelgroup (class in alab.files)
modelstructures (class in alab)
P
plot() (alab.contactmatrix method)
plotRadialPosition() (alab.structuresummary method)
plotSum() (alab.contactmatrix method)
plotZeroCount() (alab.contactmatrix method)
R
range() (alab.contactmatrix method)
removeDiagonal() (alab.contactmatrix method)
removePoorRegions() (alab.contactmatrix method)
resolution (alab.contactmatrix attribute)
rowsum() (alab.contactmatrix method)
S
save() (alab.contactmatrix method)
(alab.structuresummary method)
saveCoordinates() (alab.tadmodel method)
savepym() (alab.tadmodel method)
savepym_withChromosome() (alab.tadmodel method)
scale() (alab.contactmatrix method)
set_consecutiveBeads() (alab.tadmodel method)
set_contactRestraints() (alab.tadmodel method)
set_coordinates() (alab.tadmodel method)
set_excludedVolume() (alab.tadmodel method)
set_fmaxRestraints() (alab.tadmodel method)
set_nucleusEnvelope() (alab.tadmodel method)
shrinkingOptimization() (alab.tadmodel method)
SimulatedAnnealing() (alab.tadmodel method)
SimulatedAnnealing_Scored() (alab.tadmodel method)
smoothGenomeWideHighValue() (alab.contactmatrix method)
smoothInterContactByCutoff() (alab.contactmatrix method)
structuresummary (class in alab)
T
tadmodel (class in alab)
totalRestraints (alab.structuresummary attribute)
totalViolations (alab.structuresummary attribute)
U
updateScoringFunction() (alab.tadmodel method)
V
vcnorm() (alab.contactmatrix method)
violationPercentage (alab.structuresummary attribute)
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