CAPITAL – alignment of single-cell trajectory trees
Global alignment of complex pseudotime trajectories between different single-cell RNA-seq datasets is challenging, as existing…
Browsing: Other Tools
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…
scIMC – a platform for benchmarking comparison and visualization analysis of scRNA-seq data imputation methods
With the advent of single-cell RNA sequencing (scRNA-seq), one major challenging is the so-called ‘dropout’…
scAllele – A versatile tool for the detection and analysis of variants in scRNA-seq
Single-cell RNA sequencing (scRNA-seq) data contain rich information at the gene, transcript, and nucleotide levels.…
Cogito – automated and generic comparison of annotated genomic intervals
Genetic and epigenetic biological studies often combine different types of experiments and multiple conditions. While…
Pinc – a bioinformatic-assisted workflow for genome-wide identification of ncRNAs
With the upcoming of affordable Next-Generation Sequencing technologies, the number of known non-protein coding RNAs…
scGENA – a single-cell gene coexpression network analysis framework for clustering cell types and revealing biological mechanisms
Single-cell RNA-sequencing (scRNA-seq) is a recent high-throughput technique that can measure gene expression, reveal cell…
scraps – an end-to-end pipeline for measuring alternative polyadenylation at high resolution using single-cell RNA-seq
Alternative cleavage and polyadenylation (APA) contributes to the diversity of mRNA 3′ ends, affecting post-transcriptional…
Kodoja – a workflow for virus detection in plants using k-mer analysis of RNA-sequencing data
RNA-sequencing of plant material allows for hypothesis-free detection of multiple viruses simultaneously. This methodology relies…