mirna

Discovering known and novel miRNAs from small RNA sequencing data

circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

Small non-coding RNA annotation Pipeline Optimized for rRNA- and tRNA-Derived Small RNAs

small RNA analysis from NGS data

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.

An attempt to help anyone interested in using Perl for Bioinformatics

small rna-seq analysis package

detectPanel provides leakage-aware discovery and validation of small biomarker panels from count or expression matrices.

TransfoRNA: Navigating the Uncertainties of Small RNA Annotation with an Adaptive Machine Learning Strategy

command lines tool to annotate miRNAs with a standard mirna/isomir naming

Extracellular vesicle-derived miRNA-mediated cell-cell communication inference for single-cell transcriptomic data

miARma-seq: a comprehensive tool for miRNA, mRNA and circRNA analysis

MirMachine, a command line tool to detect microRNA homologs in genome sequences.

LncmiRSRN: Identifying lncRNA related miRNA sponge regulatory network

[Pentest] miRanda: An miRNA target scanner that aims to predict mRNA targets for microRNAs using dynamic-programming alignment and thermodynamics

Precursor microRNA Identification Using Deep Convolutional Neural Networks

A command line version of the psRNATarget workflow that predicts potential miRNA target locations on a genome.

Using RNA-Seq data to improve microRNA target prediction accuracy in animals

Off-target analysis of siRNA knock down paired with RNAseq

NAnostring quality Control dasHbOard.