sampleInfo

require(GCModeller); #' GCModeller DEG experiment analysis designer toolkit imports "sampleInfo" from "phenotype_kit";

GCModeller DEG experiment analysis designer toolkit

This R# package module provides the toolkit for create and manipulate the experiment sample information data(@T:SMRUCC.genomics.GCModeller.Workbench.ExperimentDesigner.SampleInfo), which is the experiment design data of the different expression analysis:

create the sample information data: sampleInfo, guess.sample_groups, sampleinfo.text.groups, read.sampleinfo;

manipulate the sample group data: design, sample_groups, shuffle_groups, group.colors, sampleinfo_gsub, sampleId;

build the analysis model for run the different expression analysis: make.analysis, make.MLdataset.

The sample information data object in R# environment can be saved as a csv table file via the write.sampleinfo api, or be converted to a data frame via the as.data.frame api.

.NET clr type export
sample_info: SampleInfo	一般而言，对于实验数据的分析而言，在进行数据存储的时候使用的是SampleInfo.ID属性，而在进行数据可视化或者数据报告输出的时候，则是使用的SampleGroup.sample_name属性作为显示的label

.NET clr function exports
guess.sample_groups	try to parse the sampleInfo data from the sample labels
group.colors	get/set the group colors
design	Create new analysis design sample info via formula
read.sampleinfo	Read the sampleinfo data table from a given csv file
shuffle_groups	shuffle the sample group order in a random manner
sample_groups	group the sample information data by the sample group label
write.sampleinfo	save sampleinfo data as csv file
sampleInfo	create `sample_info` data table
sampleinfo_gsub	do text replace of the sample group label
sampleId	Get sample id collection from a speicifc sample data groups
sampleinfo.text.groups	Create sampleInfo table from text files
make.analysis	create the different expression analysis design of the control vs treatment
make.MLdataset	create the machine learning dataset from the gene expression matrix and the sample group information

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