Informações sobre o curso: 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.
Desenvolvido por: Johns Hopkins University
Ministrado por: Kasper Daniel Hansen, PhD, Assistant Professor, Biostatistics and Genetic Medicine
Bloomberg School of Public Health
| Informações básicas | Curso 6 de 8 no Genomic Data Science Specialization |
| Idioma | Inglês |
| Como ser aprovado | Seja aprovado em todas as tarefas para concluir o curso. |
| Classificação do usuário |
Programa
SEMANA 1
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 videos, 3 leituras
- Reading: Welcome
- Reading: Syllabus
- Reading: Pre Course Survey
- Vídeo: Installing R on A Mac
- Vídeo: Installing R Studio on a Mac
- Vídeo: What is Bioconductor
- Vídeo: Installing Bioconductor
- Vídeo: The Bioconductor Website
- Vídeo: Useful Online Resources
- Vídeo: R Base Types
- Vídeo: GRanges - Overview
- Vídeo: IRanges - Basic Usage
- Vídeo: GenomicRanges - GRanges
- Vídeo: GenomicRanges - Basic GRanges Usage
- Vídeo: GenomicRanges - seqinfo
- Vídeo: AnnotationHub
- Vídeo: Usecase: AnnotationHub and GRanges, part 1
- Vídeo: Usecase: AnnotationHub and GRanges, part 2
Nota atribuída: Quiz 1
SEMANA 2
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 videos
- Vídeo: BSgenome
- Vídeo: Biostrings - Matching
- Vídeo: BSgenome - Views
- Vídeo: GenomicRanges - Rle
- Vídeo: GenomicRanges - Lists
- Vídeo: GenomicFeatures
- Vídeo: rtracklayer - Data Import
Nota atribuída: Quiz 2
SEMANA 3
Week Three
In this week we will cover Basic Data Types, ExpressionSet, biomaRt, and R S4.
9 videos
- Vídeo: Annotation Overview
- Vídeo: ExpressionSet Overview
- Vídeo: ExpressionSet
- Vídeo: SummarizedExperiment
- Vídeo: GEOquery
- Vídeo: biomaRt
- Vídeo: R S4 Classes
- Vídeo: R S4 Methods
Nota atribuída: Quiz 3
SEMANA 4
Week Four
In this week, we will cover Getting data in Bioconductor, Rsamtools, oligo, limma, and minfi
7 videos, 1 leituras
- Vídeo: Short Read
- Vídeo: Rsamtools
- Vídeo: oligo
- Vídeo: limma
- Vídeo: minfi
- Vídeo: Count-based RNA-seq analysis
- Reading: Post Course Survey
Nota atribuída: Quiz 4
Perguntas frequentes
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Coursework
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Desenvolvedores
Johns Hopkins University
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.
Custo
| Comprar curso | |
|---|---|
| Acesso aos materiais do curso | Disponível |
| Acesso a materiais valendo nota | Disponível |
| Receba uma nota final | Disponível |
| Obtenha um Certificado de Curso compartilhável | Disponível |
Classificações e avaliações
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.
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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.