Difference between revisions of "RNAstructure"
Johnbullard (talk | contribs) (Created page with "Category:Software Category:Biology Category:Genomics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|RNAstructure}} |{{#vardefine:url|http://rna.urmc.rochester....") |
|||
| (One intermediate revision by one other user not shown) | |||
| Line 1: | Line 1: | ||
[[Category:Software]] | [[Category:Software]] | ||
[[Category:Biology]] | [[Category:Biology]] | ||
| − | [[Category: | + | [[Category:Sequencing]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|RNAstructure}} | |{{#vardefine:app|RNAstructure}} | ||
| Line 7: | Line 7: | ||
<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | <!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | ||
|{{#vardefine:conf|}} <!--CONFIGURATION--> | |{{#vardefine:conf|}} <!--CONFIGURATION--> | ||
| − | |{{#vardefine:exe|}} <!--ADDITIONAL INFO--> | + | |{{#vardefine:exe|1}} <!--ADDITIONAL INFO--> |
|{{#vardefine:job|}} <!--JOB SCRIPTS--> | |{{#vardefine:job|}} <!--JOB SCRIPTS--> | ||
|{{#vardefine:policy|}} <!--POLICY--> | |{{#vardefine:policy|}} <!--POLICY--> | ||
| Line 45: | Line 45: | ||
{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
| − | + | [http://rna.urmc.rochester.edu/Text/index.html List of included command line tools and their respective help pages.] | |
|}} | |}} | ||
Latest revision as of 21:58, 21 August 2022
Description
RNAstructure is a complete package for RNA and DNA secondary structure prediction and analysis. It includes algorithms for secondary structure prediction, including facility to predict base pairing probabilities. It also can be used to predict bimolecular structures and can predict the equilibrium binding affinity of an oligonucleotide to a structured RNA target. This is useful for siRNA design. It can also predict secondary structures common to two, unaligned sequences, which is much more accurate than single sequence secondary structure prediction. Finally, RNAstructure can take a number of different types of experiment mapping data to constrain or restrain structure prediction. These include chemical mapping, enzymatic mapping, NMR, and SHAPE data.
Environment Modules
Run module spider RNAstructure to find out what environment modules are available for this application.
System Variables
- HPC_RNASTRUCTURE_DIR - installation directory
- HPC_RNASTRUCTURE_BIN - installation directory
Additional Information
List of included command line tools and their respective help pages.