oligo - Preprocessing tools for oligonucleotide arrays

A package to analyze oligonucleotide arrays (expression/SNP/tiling/exon) at probe-level. It currently supports Affymetrix (CEL files) and NimbleGen arrays (XYS files).

Last updated 26 days ago

microarrayonechanneltwochannelpreprocessingsnpdifferentialexpressionexonarraygeneexpressiondataimportzlib

10.42 score 3 stars 10 dependents 528 scripts 2.5k downloads

oligoClasses - Classes for high-throughput arrays supported by oligo and crlmm

This package contains class definitions, validity checks, and initialization methods for classes used by the oligo and crlmm packages.

Last updated 5 months ago

infrastructure

5.86 score 17 dependents 93 scripts 2.5k downloads

crlmm - Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays

Faster implementation of CRLMM specific to SNP 5.0 and 6.0 arrays, as well as a copy number tool specific to 5.0, 6.0, and Illumina platforms.

Last updated 30 days ago

microarraypreprocessingsnpcopynumbervariation

4.78 score 3 dependents 37 scripts 532 downloads

pdInfoBuilder - Platform Design Information Package Builder

Builds platform design information packages. These consist of a SQLite database containing feature-level data such as x, y position on chip and featureSet ID. The database also incorporates featureSet-level annotation data. The products of this packages are used by the oligo pkg.

Last updated 5 months ago

annotationinfrastructure

4.49 score 13 scripts 400 downloads