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Single-cell RNA sequencing data analysis bioinformatics software tools

The development of high-throughput RNA sequencing (RNA-seq) at the single-cell level has already led to profound new discoveries in biology, ranging from the identification of novel cell types to the study of global patterns of stochastic gene expression. Alongside the…

scRNA-seq analysis steps

Data preprocessing

Data processing

Data analysis

Interpretation

Utilities

Experts in scRNA-seq analysis

They share and annotate bioinformatics tools

  • Haodong Chen's avatar image
    Haodong Chen
    Stanford Cardiovascular Institute, Stanford University School of Medicine, Stanford, California, USA

Most recent bioinformatics tools

G T A T C G C T A
p-Creode
Desktop

p-Creode

Derives multi-branching transition trajectories with a unique method to…

Derives multi-branching transition trajectories with a unique method to statistically score each result. p-Creode is an algorithm that determines the geometric shape of a collection of dense data…

G T A T C G C T A
SCANT
Desktop

SCANT Single Cell Analysis of Novel Transcripts

Allows analysis of data from the Sequence Read Archive (SRA). SCANT is a…

Allows analysis of data from the Sequence Read Archive (SRA). SCANT is a pipeline that can identify sequencing reads corresponding to novel genes which are not annotated yet.

G T A T C G C T A
GrandPrix
Desktop

GrandPrix

Allows users to predict a number of latent dimensions. GrandPrix assists users…

Allows users to predict a number of latent dimensions. GrandPrix assists users in analyzing the single-cell data. This permits researchers to examine the temporal dynamics of complex biological…

Mitotic Cell…
Dataset

Mitotic Cell Atlas

Provides a comprehensive and quantitative 4D model of the mitotic protein…

Provides a comprehensive and quantitative 4D model of the mitotic protein localization network in a dividing human cell. Mitotic Cell Atlas is an integrated experimental and computational framework…

Most popular analytical software

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DESeq
Desktop

DESeq

A method for differential analysis of RNA-sequencing count data, using…

A method for differential analysis of RNA-sequencing count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates. This enables a…

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