seqlengths_df: Create lengths of chromosomes for plotting
In brucemoran/somenone: R functions required by the somenone NextFlow nf-core pipeline
seqlengths_df R Documentation
Create lengths of chromosomes for plotting
Description
Create lengths of chromosomes for plotting
Usage
seqlengths_df(in_seqs, dict_file, which_genome)
Arguments
in_seqs
a jointsegs filename (output from Facets) with columns:
"seg", "num.mark", "nhet", "cnlr.median", "mafR", "segclust", "cnlr.median.clust", "mafR.clust", "cf.em", "tcn.em", "lcn.em"
dict_file
dictionary file for fasta used in alignment
which_genome
the genome assembly used, "hg19" or "hg38"
Value
a GRanges object with annotated jointsegs from input
brucemoran/somenone documentation built on Nov. 1, 2022, 3:56 p.m.
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| seqlengths_df | R Documentation |
Create lengths of chromosomes for plotting
Description
Create lengths of chromosomes for plotting
Usage
seqlengths_df(in_seqs, dict_file, which_genome)
Arguments
in_seqs |
a jointsegs filename (output from Facets) with columns: "seg", "num.mark", "nhet", "cnlr.median", "mafR", "segclust", "cnlr.median.clust", "mafR.clust", "cf.em", "tcn.em", "lcn.em" |
dict_file |
dictionary file for fasta used in alignment |
which_genome |
the genome assembly used, "hg19" or "hg38" |
Value
a GRanges object with annotated jointsegs from input
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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