| The major function of StructureFold is to predict RNA secondary structures from high throughput RNA structure profiling data. It takes in high throughput sequencing data and outputs predicted RNA structures |
hg clone https://toolshed.g2.bx.psu.edu/repos/tyty/structurefold
| Name | Version | Type | |
|---|---|---|---|
| biopython | 1.61 | package | |
| bowtie | 0.12.7 | package | |
| imaging | 1.1.7 | package | |
| matplotlib | 1.2.1 | package | |
| numpy | 1.7.1 | package | |
| rnastructure | 5.7 | package | |
| samtools | 0.1.18 | package | |
| vienna_rna | 2.1 | package | |
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| calculates structural reactivity on each nucleotide based on RT stop counts from the Get RT Stop Counts module | 1.0 | any | |
| iteratively maps the raw reads of RNA structural data to the reference transcriptome | 1.0 | any | |
| predict RNA structures with or without experimental constraints from the Reactivity Calculation module | 1.0 | any | |
| derives the reverse transcriptase (RT) stop count on each nucleotide from a mapped file provided by the Iterative Mapping module | 1.0 | any | |