graphYeastTimeCourse: Plot time vs normalized counts of a given gene over n...

In cmatKhan/brentlabRnaSeqTools: A Collection of Functions to Interact with the Brentlab RNASeq Database

Description

graph_output = graphTimeCourse(cst6_sample_metadata, 'CST6', 'YIL036W', cst6_norm_counts)

Usage

graphYeastTimeCourse(metadata_df, genotype_1, gene_id, norm_counts)

Arguments

metadata_df	where metadata$fastqFileName is equal in format to colnames(raw_counts)
genotype_1	is the entry in the metadata genotype1 column which you would like to examine
gene_id	is the gene id (the systematic name as opposed to the 'common name') most likely corresponding to genotype_1. This is how the correct row is extracted from the count data
norm_counts	MUST have rownames assigned to the gene_ids includes at least all samples in metadata

Value

a ggplot graph of the gene_id in question, faceted on run and library date

Note

see the vignette called yeast_timecourse_qc.Rmd. There is also sample data that comes with this package, so you can run the vignette verbatim to see how it works. The vignette includes code that

cmatKhan/brentlabRnaSeqTools documentation built on Nov. 17, 2021, 5:47 a.m.