How to use NCBI SRA Toolkit effectively?
Downloading FASTQ files from NCBI SRA database
Downloading FASTQ files from NCBI SRA database
How to reduce and visualize high-dimensional data using UMAP in Python
t-SNE using sklearn package. This article explains the basics of t-SNE, differences between t-SNE and PCA, example using scRNA-seq data, and results interpre...
Learn how to perform k-means clustering in Python. This article discusses the k-means clustering algorithm, it’s implementation in Python, and visualization ...
High-through sequencing coverage calculation and coverage recommendations
How to create and customize heatmap using pheatmap package in R
Visualize interactive heatmap using hvPlot and Bokeh
Heatmap and hierarchical clustering visualization in Python
PCA using sklearn package. This article explains the basics of PCA, sample size requirement, data standardization, and interpretation of the PCA results
Volcano plot using bioinfokit package. This article explains the visualization of volcano plots for gene expression data
Multiple hypothesis testing and corrections, type I and II errors, false discovery rate, Bonferroni correction, and Benjamini/Hochberg correction
Biological data handling and processing using Python codes