col.group
(Package: bios2mds) :
Links elements in a mmds object to specific groups and colors
Links elements in a mmds object or mmds.project object to user-provided groups and colors.
● Data Source:
CranContrib
● Keywords: mmds
● Alias: col.group
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Displays a bar plot of the eigenvalues obtained by MDS
● Data Source:
CranContrib
● Keywords: plot
● Alias: scree.plot
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Builds a multiple sequence alignment (MSA) of random sequences.
● Data Source:
CranContrib
● Keywords: utilities
● Alias: random.msa
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Writes MDS coordinates in the Protein Data Bank format for visualization with a molecular graphics viewer.
● Data Source:
CranContrib
● Keywords: write
● Alias: write.mmds.pdb
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Computes a matrix providing the distances based on dissimilarity scores between sequences from two multiple sequence alignments.
● Data Source:
CranContrib
● Keywords: distance
● Alias: mat.dis
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Performs metric MultiDimensional Scaling (MDS) analysis of active elements and projects supplementary elements onto the active space defined by active elements.
● Data Source:
CranContrib
● Keywords: exploratory analysis
● Alias: mmds.project
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Displays a scatter plot of the active elements and, if present, of supplementary elements, after a metric MDS analysis.
● Data Source:
CranContrib
● Keywords: plot
● Alias: mmds.2D.plot
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Reads a Multiple Sequence Alignment (MSA) file in FASTA format (.fasta or .fa extension).
● Data Source:
CranContrib
● Keywords: read,import,fasta
● Alias: import.fasta
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Computes the dissimilarity score between two aligned amino acid sequences, based on substitution matrices.
● Data Source:
CranContrib
● Keywords: distance
● Alias: dis
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Writes a multiple sequence alignment (MSA) file in FASTA format.
● Data Source:
CranContrib
● Keywords: export,fasta
● Alias: export.fasta
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providing 
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