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.
Este curso forma parte de Programa Especializado - Genomic Data Science
Bioconductor for Genomic Data Science
ofrecido por
Acerca de este Curso
9,804 vistas recientes
Habilidades que obtendrás
BioinformaticsBioconductorGenomicsR Programming
Programa - Qué aprenderás en este curso
Semana
13 horas para completar
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 (Total 126 minutos), 3 readings, 1 quiz
16 videos
Installing R on A Mac 2m
Installing R Studio on a Mac 1m
What is Bioconductor7m
Installing Bioconductor3m
The Bioconductor Website9m
Useful Online Resources5m
R Base Types18m
GRanges - Overview4m
IRanges - Basic Usage12m
GenomicRanges - GRanges8m
GenomicRanges - Basic GRanges Usage8m
GenomicRanges - seqinfo6m
AnnotationHub8m
Usecase: AnnotationHub and GRanges, part 112m
Usecase: AnnotationHub and GRanges, part 213m
3 lecturas
Welcome10m
Syllabus10m
Pre Course Survey10m
1 ejercicio de práctica
Quiz 120m
Semana
22 horas para completar
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 (Total 81 minutos), 1 quiz
8 videos
BSgenome6m
Biostrings - Matching6m
BSgenome - Views9m
GenomicRanges - Rle12m
GenomicRanges - Lists6m
GenomicFeatures18m
rtracklayer - Data Import14m
1 ejercicio de práctica
Quiz 220m
Semana
32 horas para completar
Week Three
In this week we will cover Basic Data Types, ExpressionSet, biomaRt, and R S4.
9 videos (Total 79 minutos), 1 quiz
9 videos
Annotation Overview4m
ExpressionSet Overview4m
ExpressionSet9m
SummarizedExperiment7m
GEOquery6m
biomaRt13m
R S4 Classes16m
R S4 Methods10m
1 ejercicio de práctica
Quiz 320m
Semana
42 horas para completar
Week Four
In this week, we will cover Getting data in Bioconductor, Rsamtools, oligo, limma, and minfi
7 videos (Total 81 minutos), 1 reading, 1 quiz
7 videos
Short Read4m
Rsamtools12m
oligo14m
limma16m
minfi11m
Count-based RNA-seq analysis15m
1 lectura
Post Course Survey10m
1 ejercicio de práctica
Quiz 420m
Principales revisiones sobre Bioconductor for Genomic Data Science
Excellent introduction to Bioconductor. Thanks to the team. However, absence of inputs from TA or Instructor was felt in the discussion.
Amazing course, motivated me to use bio conductor for descriptive seq studies of DNA.
Instructor
Kasper Daniel Hansen, PhD
Assistant Professor, Biostatistics and Genetic MedicineBloomberg School of Public Health
Acerca de Universidad Johns Hopkins
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.
Acerca del programa especializado Genomic Data Science
This specialization covers the concepts and tools to understand, analyze, and interpret data from next generation sequencing experiments. It teaches the most common tools used in genomic data science including how to use the command line, Python, R, Bioconductor, and Galaxy. The sequence is a stand alone introduction to genomic data science or a perfect compliment to a primary degree or postdoc in biology, molecular biology, or genetics.
To audit Genomic Data Science courses for free, visit https://www.coursera.org/jhu, click the course, click Enroll, and select Audit.
Preguntas Frecuentes
¿Cuándo podré acceder a las lecciones y tareas?
Una vez que te inscribes para obtener un Certificado, tendrás acceso a todos los videos, cuestionarios y tareas de programación (si corresponde). Las tareas calificadas por compañeros solo pueden enviarse y revisarse una vez que haya comenzado tu sesión. Si eliges explorar el curso sin comprarlo, es posible que no puedas acceder a determinadas tareas.
¿Qué recibiré si me suscribo a este Programa especializado?
Cuando te inscribes en un curso, obtienes acceso a todos los cursos que forman parte del Programa especializado y te darán un Certificado cuando completes el trabajo. Se añadirá tu Certificado electrónico a la página Logros. Desde allí, puedes imprimir tu Certificado o añadirlo a tu perfil de LinkedIn. Si solo quieres leer y visualizar el contenido del curso, puedes auditar el curso sin costo.
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