ClIP_align: Align to Genome
In kathrynrozengagnon/CLIPflexR: CLIP tools and wrappers in R
CLIP_align R Documentation
Align to Genome
Description
Align to Genome
Usage
CLIP_align(
samID,
res_dir = NULL,
genome_idx = NULL,
aligner = NULL,
samSheet = NULL,
thread = 4,
bwa = NULL
)
Arguments
samID
sample id in the sample sheet.
res_dir
result directory.
genome_idx
path to indexed genome.
aligner
Assign aligner bowtie2/bwa_mem/bwa_alb/subread/subjunc/hisat2
samSheet
sample sheet.
thread
thread used in the processing, default is 4
bwa
executable bwa file path.
Value
path to sorted BAM file.
Examples
testFQ <- system.file("extdata/Fox3_Std_small.fq.gz",package="CLIPflexR")
kathrynrozengagnon/CLIPflexR documentation built on Dec. 8, 2022, 7:31 p.m.
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| CLIP_align | R Documentation |
Align to Genome
Description
Align to Genome
Usage
CLIP_align( samID, res_dir = NULL, genome_idx = NULL, aligner = NULL, samSheet = NULL, thread = 4, bwa = NULL )
Arguments
samID |
sample id in the sample sheet. |
res_dir |
result directory. |
genome_idx |
path to indexed genome. |
aligner |
Assign aligner bowtie2/bwa_mem/bwa_alb/subread/subjunc/hisat2 |
samSheet |
sample sheet. |
thread |
thread used in the processing, default is 4 |
bwa |
executable bwa file path. |
Value
path to sorted BAM file.
Examples
testFQ <- system.file("extdata/Fox3_Std_small.fq.gz",package="CLIPflexR")
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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