WASP – a versatile, web-accessible single cell RNA-Seq processing platform
The technology of single cell RNA sequencing (scRNA-seq) has gained massively in popularity as it…
Browsing: Analysis Pipelines
A lineage tree-based hidden Markov model quantifies cellular heterogeneity and plasticity
Individual cells can assume a variety of molecular and phenotypic states and recent studies indicate…
Bulk2Space – de novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution
Uncovering the tissue molecular architecture at single-cell resolution could help better understand organisms’ biological and…
miRPipe – a unified computational framework for a robust, reliable, and reproducible identification of novel miRNAs from RNA sequencing data
In eukaryotic cells, miRNAs regulate a plethora of cellular functionalities ranging from cellular metabolisms, and…
Combining denoising of RNA-seq data and flux balance analysis for cluster analysis of single cells
Sophisticated methods to properly pre-process and analyze the increasing collection of single-cell RNA sequencing (scRNA-seq)…
Entropy sorting of single-cell RNA sequencing data to discern meaningful cellular heterogeneity from technical or biological noise
A team led by researchers at the Wellcome-MRC Cambridge Stem Cell Institute has developed entropy…
CellMap – in silico cell type decomposition is an efficient, inexpensive, and convenient alternative to scRNA-Seq that can leverage bulk RNA-seq
Induced pluripotent stem cell (iPSC) derived cell types are increasingly employed as in vitro model…
Sparse group lasso outperforms other penalized regression methods for gene (feature) selection from scRNA-seq data
With the emergence of single-cell RNA sequencing (scRNA-seq) technology, scientists are able to examine gene…
PPMS – A framework to Profile Primary MicroRNAs from Single-cell RNA-sequencing datasets
Single-cell/nuclei RNA-sequencing (scRNA-seq) technologies can simultaneously quantify gene expression in thousands of cells across the…
CoRMAP – comparative transcriptomics analysis pipeline for the meta-analysis of phylogenetically divergent datasets
Transcriptional regulation is a fundamental mechanism underlying biological functions. In recent years, a broad array…