Source

bioinformatics.nci.nih.gov / software.yaml

---
title: GEOquery
description: >
    The bridge between NCBI Gene Expression Omnibus and Bioconductor.
url: http://www.bioconductor.org/packages/release/bioc/html/GEOquery.html
---
title: GEOmetadb
description: >
    Mine NCBI GEO using the Bioconductor package or any SQLite client.
url: http://www.bioconductor.org/packages/release/bioc/html/GEOmetadb.html
---
title: ACME
description: >
    Algorithm for Calculating Microarray Enrichment for analysis of tiling array data.
url: http://www.bioconductor.org/packages/release/bioc/html/ACME.html
---
title: methylumi
description: >
    Read and analyze methylation data from all Illumina methylation array platforms.
url: http://www.bioconductor.org/packages/release/bioc/html/methylumi.html
---
title: SRAdb
description: >
    Find and download data from the NCBI Sequence Read Archive from R and interact with the IGV genome browser.
url: http://www.bioconductor.org/packages/release/bioc/html/SRAdb.html
---
title: ngCGH
description: >
    Simple count-based copy number estimation from paired samples such as tumor and normal.
url: http://github.com/seandavi/ngCGH