continuousflex.protocols.protocol_nma_dimred module¶

class continuousflex.protocols.protocol_nma_dimred.FlexProtDimredNMA(**kwargs)[source]¶

Bases: pwem.protocols.protocol_3d.ProtAnalysis3D

This protocol will take the images with NMA deformations as points in a N-dimensional space (where N is the number of computed normal modes) and will project them onto a reduced space

convertInputStep(deformationFile, inputId)[source]¶: Iterate through the images and write the plain deformation.txt file that will serve as input for dimensionality reduction.

createOutputStep()[source]¶

getDeformationFile()[source]¶

getInputParticles()[source]¶: Get the output particles of the input NMA protocol.

getInputPdb()[source]¶

getMethodName()[source]¶

getOutputMatrixFile()[source]¶

getProjectorFile()[source]¶

performDimredStep(deformationsFile, method, extraParams, rows, reducedDim)[source]¶