extractbams_output: extract_bams() output.
In DAMEfinder: Finds DAMEs - Differential Allelicly MEthylated regions
Description
4 Patients from a previous study (Parker et al, 2018.) with colorectal cancer
were sequenced and the normal and cancerous tissue of each patient was
obtained. The data includes a subset of chromosome 19.
Usage
1
Format
A large list with 8 elements. Each element is a list of
GRanges for each sample. Each GRanges in the list includes the
location of the CpG sites contained in the reads for each SNP. The GRanges
metadata table contains:
cov.refNumber of reads of "reference" allele in that SNP
cov.altNumber of reads of "alternative" allele in that SNP
meth.refNumber of methylated reads of "reference" allele in
that SNP
cov.refNumber of methylated reads of "alternative" allele in
that SNP
snpThe SNP containing the reads
For further details,
see https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-6949/
sample names in in ArrayExpress do not necessarily match names given here!
DAMEfinder documentation built on Nov. 8, 2020, 11:10 p.m.
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Description
4 Patients from a previous study (Parker et al, 2018.) with colorectal cancer were sequenced and the normal and cancerous tissue of each patient was obtained. The data includes a subset of chromosome 19.
Usage
1 |
Format
A large list with 8 elements. Each element is a list of
GRanges for each sample. Each GRanges in the list includes the
location of the CpG sites contained in the reads for each SNP. The GRanges
metadata table contains:
cov.refNumber of reads of "reference" allele in that SNP
cov.altNumber of reads of "alternative" allele in that SNP
meth.refNumber of methylated reads of "reference" allele in that SNP
cov.refNumber of methylated reads of "alternative" allele in that SNP
snpThe SNP containing the reads
For further details, see https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-6949/ sample names in in ArrayExpress do not necessarily match names given here!
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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