How to use NCBI SRA Toolkit effectively?
Downloading FASTQ files from NCBI SRA database
Make discoveries with your data
Recent posts
UMAP dimension reduction algorithm in Python (with example)
How to reduce and visualize high-dimensional data using UMAP in Python
t-SNE in Python for visualization of high-dimensional data
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...
k-means clustering in Python [with example]
Learn how to perform k-means clustering in Python. This article discusses the k-means clustering algorithm, it’s implementation in Python, and visualization ...
Sequencing coverage and breadth of coverage
High-through sequencing coverage calculation and coverage recommendations
pheatmap: create annotated heatmaps in R (detailed guide)
How to create and customize heatmap using pheatmap package in R
Interactive Heatmap in Python (using hvPlot and Bokeh)
Visualize interactive heatmap using hvPlot and Bokeh
Heatmap in Python
Heatmap and hierarchical clustering visualization in Python
Principal component analysis (PCA) and visualization using Python (Detailed guide with example)
PCA using sklearn package. This article explains the basics of PCA, sample size requirement, data standardization, and interpretation of the PCA results
Volcano plot in Python
Volcano plot using bioinfokit package. This article explains the visualization of volcano plots for gene expression data
Multiple hypothesis testing problem in Bioinformatics
Multiple hypothesis testing and corrections, type I and II errors, false discovery rate, Bonferroni correction, and Benjamini/Hochberg correction
Bioinformatics file readers and processing (FASTA, FASTQ, and VCF)
Biological data handling and processing using Python codes
