summarize_repeat_counts: To summarize counts of repeats as gene name and repeat family
In karakulahlab/Tool1:
Description
Usage
Arguments
See Also
Examples
Description
Takes the output of count_repeats() function as input. It is used to calculate the total number of sequencing reads derived from each TE that is located within the upstream of a certain gene.
Usage
1
summarize_repeat_counts(counts, namelist)
Arguments
counts
It is a data frame containing the output of count_repeats() function.
namelist
It is a vector consisting of sample names associated with BAM files. The user must provide same sample names being used in the given raw count matrix of genes. The order of sample names also must be the same as the gene count matrix.
See Also
Examples
1
2
#Summarize repeat counts and calculate the total number of sequencing reads derived from each TE.
TEffectR::summarize_repeat_counts(counts = repeats.counts, namelist = namelist)
karakulahlab/Tool1 documentation built on Feb. 2, 2020, 11:05 a.m.
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Description Usage Arguments See Also Examples
Description
Takes the output of count_repeats() function as input. It is used to calculate the total number of sequencing reads derived from each TE that is located within the upstream of a certain gene.
Usage
1 | summarize_repeat_counts(counts, namelist)
|
Arguments
counts |
It is a data frame containing the output of count_repeats() function. |
namelist |
It is a vector consisting of sample names associated with BAM files. The user must provide same sample names being used in the given raw count matrix of genes. The order of sample names also must be the same as the gene count matrix. |
See Also
Examples
1 2 | #Summarize repeat counts and calculate the total number of sequencing reads derived from each TE.
TEffectR::summarize_repeat_counts(counts = repeats.counts, namelist = namelist)
|
R Package Documentation
Browse R Packages
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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