Gviz - Plotting data and annotation information along genomic coordinates
Genomic data analyses requires integrated visualization of known genomic information and new experimental data. Gviz uses the biomaRt and the rtracklayer packages to perform live annotation queries to Ensembl and UCSC and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data.
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visualizationmicroarraysequencing
13.38 score 94 stars 48 dependents 2.0k scripts 6.8k downloadsseqLogo - Sequence logos for DNA sequence alignments
seqLogo takes the position weight matrix of a DNA sequence motif and plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).
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sequencematching
11.09 score 6 stars 36 dependents 501 scripts 6.3k downloadsRega - R Interface to European Genome-Phenome Archive
The European Genome-phenome Archive (EGA) provides long-term storage and controlled sharing of personally identifiable genetic data. The Rega package offers a streamlined and extensible R interface to the EGA API, facilitating the programmatic upload of metadata. GEO-like Excel submission template is provided as a default method of organizing submission metadata.
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softwareinfrastructurethirdpartyclient
5.02 score 3 scripts 360 downloads