seekIRfind: combines IRFinder output files into one file
In Solatar/seeqR:
Usage
1
seekIRfind(subfolders, conditions, cond0, cond1, batches = NA, dir = "dir")
Arguments
subfolders
vector of strings, full paths to subfolder of IRFinder results for each sample. You can use the following code to get the subfolders: subfolders <- mainfolder
\itemconditionsvector, has to contain the conditions (strings or numbers) of the samples (WT, KO, etc.) in the same order as the parameter subfolders
\itemcond0string or numeric, control condition, has to be the same as in the parameter conditions
\itemcond1string or numeric, test condition, has to be the same as in the parameter conditions
\itembatchesvector of integers, standing for batch numbers
\itemdirstring, either "dir" or "nondir"
A list of two data.frames. The second contains
Imports:
DESeq2,
ggplot2
the code is based around the DESeq2Constructor from the IRFinder pipeline
myFiles <- list.files()
iread <- seekIRfind(myFiles)
Solatar/seeqR documentation built on Feb. 19, 2021, 8:07 p.m.
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Usage
1 | seekIRfind(subfolders, conditions, cond0, cond1, batches = NA, dir = "dir")
|
Arguments
subfolders |
vector of strings, full paths to subfolder of IRFinder results for each sample. You can use the following code to get the subfolders: subfolders <- mainfolder \itemconditionsvector, has to contain the conditions (strings or numbers) of the samples (WT, KO, etc.) in the same order as the parameter subfolders \itemcond0string or numeric, control condition, has to be the same as in the parameter conditions \itemcond1string or numeric, test condition, has to be the same as in the parameter conditions \itembatchesvector of integers, standing for batch numbers \itemdirstring, either "dir" or "nondir" |
A list of two data.frames. The second contains Imports: DESeq2, ggplot2 the code is based around the DESeq2Constructor from the IRFinder pipeline myFiles <- list.files() iread <- seekIRfind(myFiles)
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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