Software
DOWNLOADS
| Version | Tarball | Manual | Release notes | Release date |
|---|---|---|---|---|
| psRobot v1.2 |  |  | Release notes for psRobot v1.2 | 2012-06-20 |
| psRobot v1.1 | | | The first release. | 2012-05-01 |
| mfold.tar.gz | Mfold 3.5 source code modified to conform to the latest Fortran and GCC compilers |
DESCRIPTION
The local version of psRobot is a smRNA analysis software package, which contains 4 functions:
- psRobot_map is designed to find all perfect matching locations of short sequences (less than 40bp) in longer reference sequences;
- psRobot_mir is designed to find small RNAs with stem-loop precursors (e.g. miRNAs or shRNAs) for a batch of input sequences from high throughput sequencing data;
- psRobot_tar is designed to find potential small RNA targets;
- psRobot_deg is designed to identify which small RNA targets are supported by user specified degradome data.
REQUIREMENTS
psRobot_mir requires "nafold" command in Mfold-3.5 software to predict the folding structures of precursor RNAs.
INSTALLATION
The simplest way to install this package is:
./configure
make
make install
make
make install
Install psRobot in an alternative path:
./configure -p <your installation path> -l <your perl lib path>
make
make install
Configuration options:make
make install
| -h | display this help and exit |
| -p PREFIX | install architecture-independent files in PREFIX |
| [complete path needed, default is "/usr/bin"] | |
| -l LIBS | install perl libs in LIBS |
| [complete path needed, default is the standard perl lib, the path next to last in your @INC] |
CITATION
To reference psRobot, please cite:
Wu HJ, Ma YK, Chen T, Wang M, Wang XJ. (2012) PsRobot: a web-based plant small RNA meta-analysis toolbox. Nucleic Acids Res. DOI:10.1093/nar/gks554. Full Text