CellBench: R/Bioconductor software for comparing single-cell RNA-seq analysis methods
نویسندگان
چکیده
منابع مشابه
Methods, Challenges and Potentials of Single Cell RNA-seq
RNA-sequencing (RNA-seq) has become the tool of choice for transcriptomics. Several recent studies demonstrate its successful adaption to single cell analysis. This allows new biological insights into cell differentiation, cell-to-cell variation and gene regulation, and how these aspects depend on each other. Here, I review the current single cell RNA-seq (scRNA-seq) efforts and discuss experim...
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A major challenge in developmental biology is to understand the genetic and cellular processes/programs driving organ formation and differentiation of the diverse cell types that comprise the embryo. While recent studies using single cell transcriptome analysis illustrate the power to measure and understand cellular heterogeneity in complex biological systems, processing large amounts of RNA-se...
متن کاملAssessment of Single Cell RNA-Seq Normalization Methods
We have assessed the performance of seven normalization methods for single cell RNA-seq using data generated from dilution of RNA samples. Our analyses showed that methods considering spike-in External RNA Control Consortium (ERCC) RNA molecules significantly outperformed those not considering ERCCs. This work provides a guidance of selecting normalization methods to remove technical noise in s...
متن کاملComparison of Microarray and RNA‐seq Analysis Methods for Single Cell Transcriptomics
Behavior of single cells can be explained through changes in the transcription level of the genome followed by translation of the resulting mRNA into proteins (1). Changes in gene expression levels of each cell, in turn, are controlled by sensory networks that respond to the external environment. Even though within an organism or tissue all cells have the same genome, diverse phenotypes exist b...
متن کاملPackage 'scran' Title Methods for Single-cell Rna-seq Data Analysis
buildSNNGraph . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2 combineVar . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3 convertTo . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5 correlatePairs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7 cyclone . . . ....
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2019
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btz889