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|Interface||Command line interface|
|Restrictions to use||None|
|License||GNU General Public License version 3.0|
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Publication for smyRNA
Identification of non coding RNAs with a new composite feature in the Hybrid Random Forest Ensemble algorithm
[…] tability. However, this concept cannot be applied to all ncRNA families (,). Some features, such as nucleotide composition (k-mer), have been used with some success for ncRNA gene prediction (e.g. in smyRNA and ncRNAscout). A statistically significant signal based on CG content can be applied restrictively in AT-rich hyper-thermophiles (). However, these sequence features are limited to compact ba […]
Computational Small RNA Prediction in Bacteria
[…] e sRNApredict, sRNAscanner, and sRNAfinder, which uses either genomic DNA sequence for signal prediction, or pre-computed signal coordinates from other databases. Generic methods such as nocoRNAc and smyRNA make use of antisense RNA transcript expression-profiling and ab initio structural sequence motif-based discovery, respectively., Such collective efforts have lead to an explosion in the number […]
Searching for Non coding RNAs in Genomic Sequences Using ncRNAscout
[…] For the bacterial genomes analyzed in this work, ncRNAscout was able to discover significantly more known ncRNAs that surpass the MCC threshold of 0.5, compared to smyRNA (). This suggests that ncRNAscout is more accurate in its detections. On average, ncRNAscout detects approximately 88.21% of all the known ncRNAs in the four genomes in with a standard deviati […]
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