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sequence_logo

v1.3.5RubyGems· Ruby

SequenceLogo is a tool for drawing sequence logos of motifs. It gets Positional Count Matrices(PCMs) or IUPAC sequences as input and generates png-logos for a motif. Also one can create logo for reverse complement or even generate logos for a whole collection of motifs. Sequence logos are a graphical representation of an amino acid or nucleic acid multiple sequence alignment developed by Tom Schneider and Mike Stephens. Each logo consists of stacks of symbols, one stack for each position in the sequence. The overall height of the stack indicates the sequence conservation at that position, while the height of symbols within the stack indicates the relative frequency of each amino or nucleic acid at that position. In general, a sequence logo provides a richer and more precise description of, for example, a binding site, than would a consensus sequence (see http://weblogo.berkeley.edu/)

The verdict
Maintained. Niche but maintained, actively maintained.
Live from the RubyGems registry · derived rules, not AI
How it scores
MaintenanceHealthy
PopularityNiche
SecurityClean
LicenseUnknown
DepsZero deps
Maintenance
Last published 5 months ago.
Popularity
13 downloads / week
Security
No known advisories for this version (OSV).
License
No license declared.
Dependencies
No runtime dependencies
Recent releases
  • 1.3.55 months ago
  • 1.3.45 months ago
  • 1.3.35 years ago
  • 1.3.27 years ago
  • 1.3.17 years ago
  • 1.3.08 years ago
  • 1.2.310 years ago
  • 1.2.210 years ago
sequence_logo — SequenceLogo is a tool for drawing sequence logos of motifs. It gets Positional Count Matrices(PCMs) or IUPAC sequences as input and generates png-logos for a motif. Also one can create logo for reverse complement or even generate logos for a whole collection of motifs. Sequence logos are a graphical representation of an amino acid or nucleic acid multiple sequence alignment developed by Tom Schneider and Mike Stephens. Each logo consists of stacks of symbols, one stack for each position in the sequence. The overall height of the stack indicates the sequence conservation at that position, while the height of symbols within the stack indicates the relative frequency of each amino or nucleic acid at that position. In general, a sequence logo provides a richer and more precise description of, for example, a binding site, than would a consensus sequence (see http://weblogo.berkeley.edu/) (Ruby / RubyGems) · Modules