# Biological data analysis and visualization with R

- Institution: IIT Kharagpur
- Department: Biotechnology
- Teacher: Prof. Riddhiman Dhar
- Level: Undergraduate
- Language: English
- Subjects: Biology
- Source: [NPTEL](https://nptel.ac.in/courses/102105556)
- Licence: [CC BY-NC-SA](https://nptel.ac.in/faq) (Non-commercial use only.)
- Syllabus: [at the source](https://nptel.ac.in/courses/102105556)
- Who can watch: Tweens profiles and older (sources give no ratings; placed by Invisible Network from the source's own words)

## Lectures

1. [Lecture 01 : Introduction](https://invisiblenetwork.ai/learn/nptel/102105556/84a2a47b8ccc) (Video)
2. [Lecture 02 : Setting up R](https://invisiblenetwork.ai/learn/nptel/102105556/9d31419d8bad) (Video)
3. [Lecture 03 : Basic functions in R](https://invisiblenetwork.ai/learn/nptel/102105556/6f54d1df2445) (Video)
4. [Lecture 04 : Basic data structures in R](https://invisiblenetwork.ai/learn/nptel/102105556/b2df726f82ec) (Video)
5. [Lecture 05 : Data structures and File I/O](https://invisiblenetwork.ai/learn/nptel/102105556/06d075cf52d6) (Video)
6. [Lecture 06 : Basic statistical tests with R](https://invisiblenetwork.ai/learn/nptel/102105556/47ec9d3fff52) (Video)
7. [Lecture 07 : Correlation analysis](https://invisiblenetwork.ai/learn/nptel/102105556/4c52d4e5a4a7) (Video)
8. [Lecture 08 : Analysis of variance (ANOVA)](https://invisiblenetwork.ai/learn/nptel/102105556/3a15121231cf) (Video)
9. [Lecture 09 : Basic data visualization techniques](https://invisiblenetwork.ai/learn/nptel/102105556/73c9e6a9be5e) (Video)
10. [Lecture 10 : Data visualization](https://invisiblenetwork.ai/learn/nptel/102105556/9e2fa4eaa19f) (Video)
11. [Lecture 11 : Visualization with vioplot and ggplot2](https://invisiblenetwork.ai/learn/nptel/102105556/f9406de2b707) (Video)
12. [Lecture 12 : R packages for plotting and data organization](https://invisiblenetwork.ai/learn/nptel/102105556/a3316881195f) (Video)
13. [Lecture 13 : Data transformation in R](https://invisiblenetwork.ai/learn/nptel/102105556/5dd55e8d95ce) (Video)
14. [Lecture 14 : Bioconductor packages](https://invisiblenetwork.ai/learn/nptel/102105556/6aa72ad21657) (Video)
15. [Lecture 15 : Flow cytometry data analysis in R/Bioconductor](https://invisiblenetwork.ai/learn/nptel/102105556/d57365f6e563) (Video)
16. [Lecture 16 : Gene expression analysis and co-expression network](https://invisiblenetwork.ai/learn/nptel/102105556/64cc506bb828) (Video)
17. [Lecture 17 : WGCNA package and Data Download](https://invisiblenetwork.ai/learn/nptel/102105556/842e78c4ca07) (Video)
18. [Lecture 18 : WGCNA hands-on: Data preprocessing](https://invisiblenetwork.ai/learn/nptel/102105556/4a1470759410) (Video)
19. [Lecture 19 : WGCNA hands-on: Soft-threshold](https://invisiblenetwork.ai/learn/nptel/102105556/c44a746ae5ad) (Video)
20. [Lecture 20 : WGCNA: Module gene expression](https://invisiblenetwork.ai/learn/nptel/102105556/876812830ad6) (Video)
21. [Lecture 21 : Introduction to ChIP-seq](https://invisiblenetwork.ai/learn/nptel/102105556/247a1a4dcf95) (Video)
22. [Lecture 22 : ChIP-seq data analysis](https://invisiblenetwork.ai/learn/nptel/102105556/3c452f6a2a93) (Video)
23. [Lecture 23 : ChIP-seq data analysis: Peak calling](https://invisiblenetwork.ai/learn/nptel/102105556/11757ab4d676) (Video)
24. [Lecture 24 : Peak calling and Visualization](https://invisiblenetwork.ai/learn/nptel/102105556/49d871cc8039) (Video)
25. [Lecture 25 : ChIP-seq data analysis: bigWig/bw files](https://invisiblenetwork.ai/learn/nptel/102105556/03eea81936dc) (Video)
26. [Lecture 26 : Regression models on Biological data](https://invisiblenetwork.ai/learn/nptel/102105556/f57de85849bc) (Video)
27. [Lecture 27 : Predictive models with linear regression](https://invisiblenetwork.ai/learn/nptel/102105556/572a0a1ff865) (Video)
28. [Lecture 28 : Multicollinearity](https://invisiblenetwork.ai/learn/nptel/102105556/524762f4a98e) (Video)
29. [Lecture 29 : Lasso regression](https://invisiblenetwork.ai/learn/nptel/102105556/39f11ff40124) (Video)
30. [Lecture 30 : Non-linear regression](https://invisiblenetwork.ai/learn/nptel/102105556/73f70a42d0a0) (Video)
31. [Lecture 31: Dimensionality reduction](https://invisiblenetwork.ai/learn/nptel/102105556/7077470814ec) (Video)
32. [Lecture 32 : Principal Component Analysis (PCA)](https://invisiblenetwork.ai/learn/nptel/102105556/f110b43a237f) (Video)
33. [Lecture 33: PCA analysis hands-on](https://invisiblenetwork.ai/learn/nptel/102105556/9bd9c654cbac) (Video)
34. [Lecture 34: PCA analysis using ‘PCAtools’](https://invisiblenetwork.ai/learn/nptel/102105556/c569d716891b) (Video)
35. [Lecture 35 : UMAP analysis](https://invisiblenetwork.ai/learn/nptel/102105556/f37a7d8acb96) (Video)
36. [Lecture 36 : Classification of biological samples](https://invisiblenetwork.ai/learn/nptel/102105556/4ecf487464b9) (Video)
37. [Lecture 37 : Penalized and Stepwise Logistic regression](https://invisiblenetwork.ai/learn/nptel/102105556/b9aaba67ba91) (Video)
38. [Lecture 38 : Decision trees](https://invisiblenetwork.ai/learn/nptel/102105556/ae40acab5872) (Video)
39. [Lecture 39 : Classification and Regression trees](https://invisiblenetwork.ai/learn/nptel/102105556/3a601ad8c55f) (Video)
40. [Lecture 40 : Random Forests](https://invisiblenetwork.ai/learn/nptel/102105556/92367d06155d) (Video)
41. [Live Session 10-03-2025](https://invisiblenetwork.ai/learn/nptel/102105556/84a2a47b8ccc-2) (Video)
42. [Live Session 16-04-2025](https://invisiblenetwork.ai/learn/nptel/102105556/9d31419d8bad-2) (Video)