Category: Lab Notes: Bioinformatics
Bioinformatics
Bioinformatics is an interdisciplinary field that combines biology, computer science, mathematics, and statistics to analyze, interpret, and manage biological data….
clusterProfiler Applications
clusterProfiler has become a widely used tool across biomedical research due to its ability to translate gene- or protein-level data…
R/Bioconductor package
R/Bioconductor packages are specialized software modules developed within the Bioconductor project, an open-source initiative that extends the R programming language…
clusterProfiler
clusterProfiler is an R/Bioconductor package designed to perform statistical analysis and visualization of functional enrichment in biological datasets. It provides…
scater
scater is an R/Bioconductor package designed to provide tools for preprocessing, quality control (QC), visualization, and analysis of single-cell RNA…
scran
scran is a widely used R/Bioconductor package designed for the analysis of single-cell RNA sequencing (scRNA-seq) data, with a focus…
SingleCellExperiment
SingleCellExperiment is an R/Bioconductor data container class specifically designed to represent and manage single-cell genomics data, most notably single-cell RNA…
edgeR
edgeR is a statistical software package within the Bioconductor project in R, specifically designed for the analysis of count-based data…
DESeq2
DESeq2 is a widely used statistical package within the Bioconductor project in R, designed for the analysis of count-based next-generation…
Applications of Bioconductor
Bioconductor is not only a software ecosystem but also a powerful enabler of applied research across genomics, transcriptomics, and systems…
Bioconductor
Bioconductor is an open-source, community-driven project that provides a wide ecosystem of software tools, packages, and resources for the analysis…
UCSC Xena
UCSC Xena is an online data visualization and exploration platform developed by the University of California, Santa Cruz, designed to…
LabKey
LabKey is an open-source software platform designed to support scientific data integration, management, and collaboration. It provides a centralized system…
Pan-Cancer Analysis
Pan-cancer analysis is a large-scale approach to studying the molecular and genetic features of cancers across multiple tissue types, rather…
Reactome
Reactome is a freely accessible, open-source knowledgebase of curated biological pathways and reactions, designed to provide researchers with a detailed…