There are 2 repositories under mirna topic.
Discovering known and novel miRNAs from small RNA sequencing data
Small non-coding RNA annotation Pipeline Optimized for rRNA- and tRNA-Derived Small RNAs
An attempt to help anyone interested in using Perl for Bioinformatics
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.
small rna-seq analysis package
TransfoRNA: Navigating the Uncertainties of Small RNA Annotation with an Adaptive Machine Learning Strategy
miARma-seq: a comprehensive tool for miRNA, mRNA and circRNA analysis
LncmiRSRN: Identifying lncRNA related miRNA sponge regulatory network
Precursor microRNA Identification Using Deep Convolutional Neural Networks
isomiR quantification and analysis pipeline
A software to detect genome-wide miRNA-gene enrichment signal.
myBrain-Seq: a Compi pipeline for miRNA-Seq data analysis in neuropsychiatry
Using RNA-Seq data to improve microRNA target prediction accuracy in animals
visualization of seqcluster output, try at:
An open platform which provides information about miRNAs and genes from different popular databases
Off-target analysis of siRNA knock down paired with RNAseq
Snakemake workflow for the mapping and quantification of miRNAs and isomiRs from miRNA-Seq libraries.
A command line version of the psRNATarget workflow that predicts potential miRNA target locations on a genome.
MirMachine, a command line tool to detect microRNA homologs in genome sequences.
Analyze single-cell miRNA sequencing data from HL-60 cells along a 7-day time-course of ATRA treatment.
miRNA-UTR approximate matching algorithms in R/Python/Bash
BioSeq2vec: learning deep representation of biological sequences using LSTM Encoder-Decoder
Simulation of interactions miRNA:Competing Targets
miRSM: Inferring miRNA sponge modules by integrating expression data and miRNA-target binding information
CmiRClustFinder v1.0: a tool for identification of CNV co-locolized miRNA, miRNA clusers and genes in TCGA cancer cohorts.
Scanning sample-specific miRNA regulation from bulk and single-cell RNA-sequencing data