Interactive single cell RNA-Seq analysis with the Single Cell Toolkit (SCTK)

DF Jenkins, T Faits, E Briars, S Carrasco Pro… - BioRxiv, 2018 - biorxiv.org
Single cell RNA-sequencing (scRNA-Seq) allows researchers to profile transcriptional
activity in individual cells. However, the complex nature of these data and variability in study …

[HTML][HTML] Practical bioinformatics pipelines for single-cell RNA-seq data analysis

J He, L Lin, J Chen - Biophysics Reports, 2022 - ncbi.nlm.nih.gov
Single-cell RNA sequencing (scRNA-seq) is a revolutionary tool to explore cells. With an
increasing number of scRNA-seq data analysis tools that have been developed, it is …

Scaling up single-cell RNA-seq data analysis with CellBridge workflow

N Nouri, AH Kurlovs, G Gaglia, E de Rinaldis… - …, 2023 - academic.oup.com
Single-cell RNA sequencing (scRNA-seq) has revolutionized the study of gene expression
at the individual cell level, unraveling unprecedented insights into cellular heterogeneity …

Over 1000 tools reveal trends in the single-cell RNA-seq analysis landscape

L Zappia, FJ Theis - Genome biology, 2021 - Springer
Recent years have seen a revolution in single-cell RNA-sequencing (scRNA-seq)
technologies, datasets, and analysis methods. Since 2016, the scRNA-tools database has …

Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database

L Zappia, B Phipson, A Oshlack - PLoS computational biology, 2018 - journals.plos.org
As single-cell RNA-sequencing (scRNA-seq) datasets have become more widespread the
number of tools designed to analyse these data has dramatically increased. Navigating the …

[HTML][HTML] An accessible, interactive GenePattern Notebook for analysis and exploration of single-cell transcriptomic data

CK Mah, AT Wenzel, EF Juarez, T Tabor… - …, 2019 - pmc.ncbi.nlm.nih.gov
Single-cell RNA sequencing (scRNA-seq) has emerged as a popular method to profile gene
expression at the resolution of individual cells. While there have been methods and software …

Shaoxia: a web-based interactive analysis platform for single cell RNA sequencing data

W Wei, X Xia, T Li, Q Chen, X Feng - BMC genomics, 2024 - Springer
Abstract Background In recent years, Single-cell RNA sequencing (scRNA-seq) is
increasingly accessible to researchers of many fields. However, interpreting its data …

SC1: a tool for interactive web-based single-cell RNA-Seq data analysis

M Moussa, II Măndoiu - Journal of Computational Biology, 2021 - liebertpub.com
Single-cell RNA-Seq (scRNA-Seq) is critical for studying cellular function and phenotypic
heterogeneity as well as the development of tissues and tumors. In this study, we present …

User-friendly, scalable tools and workflows for single-cell analysis

P Moreno, N Huang, JR Manning, S Mohammed… - bioRxiv, 2020 - biorxiv.org
Abstract Single-cell RNA-Seq (scRNA-Seq) data analysis requires expertise in command-
line tools, programming languages and scaling on compute infrastructure. As scRNA-Seq …

Computational Analysis of Single-Cell RNA-Seq Data

B Hwang - Transcription Factor Regulatory Networks, 2022 - Springer
Single-cell RNA sequencing (scRNA-seq) is gaining popularity as this allows you to profile a
large number of individual cells. However, as the volume of the data increases, the need for …