find_instances: Find instances of de-novo Homer motifs
In MalteThodberg/homeR: Run Homer from inside R
Description
Usage
Arguments
Details
Value
Author(s)
See Also
Description
Find instances of de-novo Homer motifs in a GRanges using Homer's annotatePeaks.pl script.
Usage
1
find_instances(pos_file, genome, output_dir = tempdir())
Arguments
pos_file
<#> (Genomic Ranges object)
genome
<#> (Installed Homer genome) or (path to FASTA)
output_dir
Path to output dir for Homer analysis. Defaults to tempdir()
Details
Must point to a Homer output directory to find a 'homerMotifs.all.motifs' file. Saves a the raw output file from annotatePeaks.pl as 'motifInstances.tab" in the same folder.
Value
A tidy dataframe of instances of motifs.
Author(s)
Malte Thodberg
See Also
MalteThodberg/homeR documentation built on May 7, 2019, 2:09 p.m.
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Description Usage Arguments Details Value Author(s) See Also
Description
Find instances of de-novo Homer motifs in a GRanges using Homer's annotatePeaks.pl script.
Usage
1 | find_instances(pos_file, genome, output_dir = tempdir())
|
Arguments
pos_file |
<#> (Genomic Ranges object) |
genome |
<#> (Installed Homer genome) or (path to FASTA) |
output_dir |
Path to output dir for Homer analysis. Defaults to tempdir() |
Details
Must point to a Homer output directory to find a 'homerMotifs.all.motifs' file. Saves a the raw output file from annotatePeaks.pl as 'motifInstances.tab" in the same folder.
Value
A tidy dataframe of instances of motifs.
Author(s)
Malte Thodberg
See Also
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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