Pazz
Prasanth A S
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Reg.Accuracy Data
Dr. Ashok's project
Bioconductor architecture exercises
This contains the whole exercises codes of Bioconductor Architecture module of Week 4 of HarvardX PH525.
Visualization options : ggbio
Different simple and rapid ways of visualizations in Bioconductor: ggbio and Gviz. ggbio is illustrated in this file. Some exercises from week4 architecture module from PH525 HarvardX course
Inference from RNA seq data
The different Bioconductor methods to infer RNA seq data accessing different public resources of databases and annotations and linking them all in R. Plus exercises of week 4 HarvardX edx course PH525.4
Visualizing NGS data
Three different methods to visualize NGS data, exercises for cross comparison of GRanges locations and sequences. PH525.4 Bioconductor last module in week 3
Normalization of RNAseq Data
Various reason for spurious high correlation in RNAseq data. Some exercises to explain that in PH525.4 HarvardX Bioconductor course
Modeling Microarray
Exercises to show how the data structure is spread and noise density in Microarray data. Also exercise on methods for EDA and modeling to reduce the noise.
Transformations and EDA in NGS data
Basic EDA using NGS data files are described. Exercise on understanding data using EDA is also given for codes for PH525.4 Harvard Edx
NGS read counting
Describes how to use sumarizeOverlaps function. Exercises to look into the details in PH525.4 Edx course
Importing NGS data into BioC
first of the three sessions in the module in Week3, importing NGS data into Bioconductor. Plus codes for solutions to assignments
Reading Microarray data
R markdown files of PH525.4 Bioconductor Harvard Edx course week3 module 4 and codes for the assignment exercises
ExpressionSet & SummarizedExperiment
The Annotation of high-throughput data using two different Biobase packages of Bioconductor. Sample codes and Exercises of the class of Edx HarvardX Bioconductor introduction course PH525.4 is also included
Advanced Annotation Exercises
Exercise solutions to second module of second week of Harvard Edx course PH525.4
Computing Genomic Regions
Exercises of part one of the second week module in HarvadX Edx PH 525.4 course.
Bioconductor Cheat sheet
Essential codes for basic bioconductor packages and their uses. Made by Dr. Mike Love
Bioconductor_First_Look
Assignments of first week of PH525.4 HarvardX Edx course: Introduction to Bioconductor.
Bioconductor_Start
Details of how to access Bioconductor files and start using them.