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Builds a HMM3 profile from a multiple sequence alignment. The HMM3 profile is a statistical model which captures position-specific information about how conserved each column of the alignment is, and which residues are likely.

Parameters in GUI

ParameterDescriptionDefault value
Random seedRandom generator seed. 0 - means that one-time arbitrary seed will be used.0

Parameters in Workflow File

Type: hmm3-build

ParameterParameter in the GUIType
seedRandom seednumeric

Input/Output Ports

The element has 1 input port:

Name in GUI: Input MSA

Name in Workflow File: in-msa

Slots:

Slot In GUISlot in Workflow FileType
MSAmsamsa

And 1 output port:

Name in GUI: HMM3 profile

Name in Workflow File: out-hmm3

Slots:

Slot In GUISlot in Workflow FileType
HMM profilehmm3-profilehmm3-profile
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