關於此課程：Learn to use tools from the Bioconductor project to perform analysis of genomic data. This is the fifth course in the Genomic Big Data Specialization from Johns Hopkins University.
製作方： 约翰霍普金斯大学
教學方： Kasper Daniel Hansen, PhD, Assistant Professor, Biostatistics and Genetic Medicine
Bloomberg School of Public Health
| 基本信息 | 課程 6（共 8 門，基因组数据科学 Specialization ） |
| 語言 | 英語（English） |
| 如何通過 | 通過所有計分作業以完成課程。 |
| 用戶評分 |
授課大綱
第 1 週
Week One
The class will cover how to install and use Bioconductor software. We will discuss common data structures, including ExpressionSets, SummarizedExperiment and GRanges used across several types of analyses.
16 個視頻, 3 個閱讀材料
- Reading: Welcome
- Reading: Syllabus
- Reading: Pre Course Survey
- 視頻: Installing R on A Mac
- 視頻: Installing R Studio on a Mac
- 視頻: What is Bioconductor
- 視頻: Installing Bioconductor
- 視頻: The Bioconductor Website
- 視頻: Useful Online Resources
- 視頻: R Base Types
- 視頻: GRanges - Overview
- 視頻: IRanges - Basic Usage
- 視頻: GenomicRanges - GRanges
- 視頻: GenomicRanges - Basic GRanges Usage
- 視頻: GenomicRanges - seqinfo
- 視頻: AnnotationHub
- 視頻: Usecase: AnnotationHub and GRanges, part 1
- 視頻: Usecase: AnnotationHub and GRanges, part 2
已評分: Quiz 1
第 2 週
Week Two
In this week we will learn how to represent and compute on biological sequences, both at the whole-genome level and at the level of millions of short reads.
8 個視頻
- 視頻: BSgenome
- 視頻: Biostrings - Matching
- 視頻: BSgenome - Views
- 視頻: GenomicRanges - Rle
- 視頻: GenomicRanges - Lists
- 視頻: GenomicFeatures
- 視頻: rtracklayer - Data Import
已評分: Quiz 2
第 3 週
Week Three
In this week we will cover Basic Data Types, ExpressionSet, biomaRt, and R S4.
9 個視頻
- 視頻: Annotation Overview
- 視頻: ExpressionSet Overview
- 視頻: ExpressionSet
- 視頻: SummarizedExperiment
- 視頻: GEOquery
- 視頻: biomaRt
- 視頻: R S4 Classes
- 視頻: R S4 Methods
已評分: Quiz 3
第 4 週
Week Four
In this week, we will cover Getting data in Bioconductor, Rsamtools, oligo, limma, and minfi
7 個視頻, 1 個閱讀材料
- 視頻: Short Read
- 視頻: Rsamtools
- 視頻: oligo
- 視頻: limma
- 視頻: minfi
- 視頻: Count-based RNA-seq analysis
- Reading: Post Course Survey
已評分: Quiz 4
常見問題解答
運作方式
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製作方
约翰霍普金斯大学
The mission of The Johns Hopkins University is to educate its students and cultivate their capacity for life-long learning, to foster independent and original research, and to bring the benefits of discovery to the world.
價格
| 購買課程 | |
|---|---|
| 訪問課程材料 | 可用 |
| 訪問評分的材料 | 可用 |
| 收到最終成績 | 可用 |
| 獲得可共享的課程證書 | 可用 |
評分和審閱
It's very helpful in learning genomic data science. I think it's a little difficult in the beginning. The instructor have some accent, which made me even harder to get into it.
Good course, although some previous experience with R is required and that was not clearly stated beforehand. Moreover it would be better to have a more introductory course to R.
A great introduction to Bioconductor! The course is very hands-on, so be ready to use R extensively.
The lessons are fairly easy to follow - although the transcript needs re-writing so that the correct words are identified to the speech. I spent a lot of time trying to decipher one or two key words.
The quizzes seemed to test on concepts not yet taught.. perhaps familiar to other Bioinformaticians.. so they were quite tough and required a lot of time to finish.