ScRAT – phenotype prediction from single-cell RNA-seq data using attention-based neural networks
Understanding the cellular basis of disease phenotypes is crucial for developing targeted therapies. Traditional bulk…
Browsing: Analysis Pipelines
LR Hunting – a random forest based cell–cell interaction discovery method for single-cell gene expression data
Cell-cell interactions (CCIs) and communication (CCC) play vital roles in orchestrating complex biological systems. Understanding…
CLIPPR – leveraging single-cell sequencing to classify and characterize tumor subgroups in bulk RNA sequencing data
Cancer is not a single disease but a diverse group of diseases characterized by distinct…
Digital RNA sequencing using unique molecular identifiers enables ultrasensitive RNA mutation analysis
Understanding genetic mutations is crucial for various applications, from diagnosing diseases to unraveling the complexities…
KinPred-RNA – kinase activity inference and cancer type classification using machine learning on RNA-seq data
Kinases play a pivotal role in regulating various cellular processes by transferring phosphate groups from…
rMATS-turbo – an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq data
The process of alternative splicing adds a layer of complexity to the way genetic information…
CANAL – continually adapting pre-trained language model to universal annotation of single-cell RNA-seq data
Annotating cell types within single-cell RNA sequencing (scRNA-seq) datasets has posed a significant challenge, especially…
scEM – a new ensemble framework for predicting cell type composition based on scRNA-seq data
In recent years, single-cell RNA sequencing (scRNA-seq) technology has revolutionized our understanding of cellular composition…
STACAS – semi-supervised integration of single-cell transcriptomics data
Single-cell RNA sequencing (scRNA-seq) has revolutionized our understanding of cellular diversity and function. However, the…
TFvelo – gene regulation inspired RNA velocity estimation
Understanding the dynamics of gene expression within single cells is crucial for deciphering cell fate…