convTo37

convTo37,ChipInfo-method

convTo36

convTo36,ChipInfo-method

convTo38

convTo38,ChipInfo-method

<p>Returns the a ChipInfo object with positions updated to build 36/37/38
coordinates, assuming that the build() slot was entered correctly. 
Ensure that the value of ucsc(x) is correct before
running this function for conversion; for instance, if the coordinates 
are already build 37/hg19, but ucsc(x)!="hg19" (incorrect value), then
these coordinates will be transformed in a relative manner rendering the
result meaningless.</p>

Utilises GRanges, data.frame or IRanges objects. Integrates gene annotation for ImmunoChip (or your custom chip) with function calls. Intuitive wrappers for annotation lookup (gene lists, exon ranges, etc) and conversion (e.g, between build 36 and 37 coordinates). Conversion between ensembl and HGNC gene ids, chip ids to rs-ids for SNP-arrays. Retrieval of chromosome and position for gene, band or SNP-ids, or reverse lookup. Simulation functions for ranges objects.

Nicholas Cooper

humarray

Simplify Analysis and Annotation of Human Microarray Datasets

convTo37 function

Convert ChipInfo between build 36/37/38 coordinates — convTo37

Convert ChipInfo between build 36/37/38 coordinates

convTo37: Convert ChipInfo between build 36/37/38 coordinates

Description

Usage

Arguments

Value