Advanced Bioinformatics Data Analysis: Python, R, and Linux

سرفصل های دوره

Master Advanced Bioinformatics Data Analysis with Python, R, and Linux: Uncover Insights from Biological Data

1 - Python Section

1 - Introduction to Bioinformatics and Why Python

2 - BioPython Introduction

3 - GitHub Repository for Python.html

4 - Setting up Coding Environment

5 - Explaining the libraries for the course

6 - Advance File Formats of Bioinformatics with BioPython

7 - Sequence Analysis Using Biopython

8 - Database RetrievalAccessing Using Biopython

9 - Working With Genomes Using Biopython

10 - Phylogenetic Tree Construction using Biopython

11 - Proteomics Analysis Using Biopython

12 - Machine Learning in Bioinformatics

2 - R Section

13 - Introduction to Bioinformatics and R Exploring the Intersection of Biology

14 - Getting Started with R Installation and Variables Understanding

15 - Working with R Packages Installing Loading and Exploring Bioinformatics

16 - Differential Gene Expression Analysis with Deseq2 Preparing Data

17 - Deseq2 Code Understanding

18 - Converting Ensembl Gene IDs to Gene Symbols Using R Techniques and Packages

19 - Visualizing Gene Expression Data Creating Stunning Plots with ggplot2

20 - Introduction to SingleCell RNA Sequencing scRNAseq Data Analysis

21 - Exploring scRNAseq Code Cell Trajectories and Gene Expression Dynamics

22 - GitHub Source Code for R.html

3 - Microarray Data Analysis Using R

23 - Introduction of Microarray

24 - Microarray Databases

25 - Microarray Analysis Using GEO2R

26 - Microarray Analysis on R

27 - Source Code for Microarray Section.html

4 - LinuxWSL for Bioinformatics

28 - Introduction and Why CLI in Bioinformatics

29 - CLI and GUI Explanation

30 - if we already have Graphical user interface system why we should use CLI

31 - Short Practical with Programming Language

32 - Why Would You Use CLI over GUI

33 - Foundation behind CLI Shell explanation

34 - Drawbacks of CLI and GUI

35 - Linux Introduction and Usage Over years

36 - Linux Distros

37 - Why Ubuntu Operating System

38 - WSL Explanation

39 - Linux Vs Unix

40 - Practical Making A Subsystem For Linux In Windows OS

41 - Linux File Handling Commands

42 - Accessing And Creating Files In Windows Os

43 - Basic Process Management Commands for Linux OS

44 - Eutilities on the Linux Command Line

45 - Installing NCBI through CLi

46 - Code Used in Lectures.html

47 - Entrez Direct Functions

48 - Mrna And Protein Seq Retrieval

49 - Batch Retrieval of Protein Using Taxon Id

50 - Retrieving CDS From Reference Genome

51 - Explaining Different Commands

5 - Bioinformatics Pipeline

52 - Pipeline Explanation

6 - NGS data Analysis on Command Line

53 - Getting the SRA Reads

54 - Checking the Quality of Data

55 - Quality Trimming of data

56 - Aligners and Aligning Reads to genome

57 - SAM and Bam File Indexing and Sorting

58 - Feature Extraction

59 - Pipeline Code.html

7 - Variant Calling Pipeline Using Linux

60 - Variants and Types

61 - Understanding the Metadata and Softwares

62 - Getting Data From SRA Using SRA Toolkit

63 - Quality Control and Trimming

64 - Sam and Bcf Tools and Fixing NS and Calling Variants

65 - Alignment to Reference Genome

66 - Separation of SNPs and Indels Variants

67 - Visualizing Variants Using IGV and UCSC Browser

68 - Pipeline Code.html

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تولید کننده: Udemy