- prepairing rna predictions for deep learning.
- classification based on the expectation value.
cargo build
Machine learning and Target Prediction from RNAs
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Author Gaurav Sablok,
Email: codeprog@icloud.com
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Usage: rnaml <COMMAND>
Commands:
mirna-machine Machine learning for miRNAs with upstream and downstream
mirna-part Machine learning for miRNAs with only predicted sequence part
extract-mirna Extract the miRNA with the annotated regions and up and down stream
help Print this message or the help of the given subcommand(s)
Options:
-h, --help Print help
-V, --version Print version
Machine learning for miRNAs with upstream and downstream
Usage: rnaml mirna-machine <ANNOTATIONFILE> <PSRNATARGET> <EXPECTATIONINPUT> <UPSTREAMINPUT> <DOWNSTREAMINPUT> <PREDICTFASTA> <THREAD>
Arguments:
<ANNOTATIONFILE> transcript file used for the annotation
<PSRNATARGET> psrna target prediction file
<EXPECTATIONINPUT> expectation value
<UPSTREAMINPUT> upstream for the sequences
<DOWNSTREAMINPUT> downstream for the sequences
<PREDICTFASTA> prediction fasta file
<THREAD> number of threads
Options:
-h, --help Print help
Machine learning for miRNAs with only predicted sequence part
Usage: rnaml mirna-part <ANNOTATIONFILE> <PSRNATARGET> <EXPECTATIONINPUT> <PREDICTFASTA> <THREAD>
Arguments:
<ANNOTATIONFILE> transcript file used for the annotation
<PSRNATARGET> psrna target prediction file
<EXPECTATIONINPUT> expectation value
<PREDICTFASTA> prediction fasta file
<THREAD> number of threads
Options:
-h, --help Print help
Extract the miRNA with the annotated regions and up and down stream
Usage: rnaml extract-mirna <ANNOTATIONFILE> <PSRNATARGET> <EXPECTATIONINPUT> <UPSTREAMINPUT> <DOWNSTREAMINPUT> <THREAD>
Arguments:
<ANNOTATIONFILE> transcript file used for the annotation
<PSRNATARGET> psrna target prediction file
<EXPECTATIONINPUT> expectation value
<UPSTREAMINPUT> upstream for the sequences
<DOWNSTREAMINPUT> downstream for the sequences
<THREAD> number of threads
Options:
-h, --help Print help
Gaurav Sablok
codeprog@icloud.com