Author: tille
Date: 2016-05-11 15:44:58 +0000 (Wed, 11 May 2016)
New Revision: 21940
Modified:
trunk/packages/R/r-bioc-000-dependency-scheme/3.3/BioC_3.3-dependency-tree.ditaa
Log:
Update dependency graph
Modified: trunk/packages/R/r-bioc-000-dependency-scheme/3.3/BioC_3.3-dependency-tree.ditaa
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.3/BioC_3.3-dependency-tree.ditaa 2016-05-11 15:07:50 UTC (rev 21939)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.3/BioC_3.3-dependency-tree.ditaa 2016-05-11 15:44:58 UTC (rev 21940)
@@ -1,79 +1,79 @@
- +------------+
- | cummerbund |
- +------------+
- ^
- |
- +---+--+
- | gviz |
- +------+
- ^
- +-------+ |
- | edger | +-----------+ +------+-----+
- +-------+ | ensembldb +-------------------------->| biovizbase |
- ^ +-----------+ +------+-----+
- | ^ ^
- +---+---+ +------------+ +--------+ | |
- | limma | | hilbertvis | | qvalue | +-------+-------+ +----------+--------+
- +-------+ +------------+ +--------+ | annotationhub | | variantannotation |
- ^ +---------------+ +-------------------+
- : ^ ^ ^ ^
- : | | | |
- +------+------+ | | +------------+----+ +-+---------+
- |cAAA go.db | | | | genomicfeatures | | bsgenome |
- +-------------+ +--------------+ | | +-----------------+ +-----------+
- | altcdfenvs | | | ^ ^ ^
- +--------------+ | | | | |
- ^ ^ ^ | | | +--+-------+--+
- | | | | | | | rtracklayer |
- +-----------------------------+ | | +-------------------------------------+ | | +-------------+
- | | | | | | ^
- | +-----------++ | | | +-------------+ |
- | | makecdfenv | | | +-----------+ | | +----------+--------+
- | +------------+ | | +-------------------->| shortread |<----------|---------------+ genomicalignments |
- | ^ | | | +-----------+ | | +-------------------+
- | | | | | | | ^ ^
- | | | | | | | | |
- | | | | | | | +-----------+--+ +--------+-------------+
- | | +---------------------+ +------------------------------------>| rsamtools | | summarizedexperiment |
- | | | | | | | | +--------------+ +----------------------+
- | | | | | | | | ^ ^: ^ ^ ^
- | | | | | | | | | |: : | |
- | | | | | | +=====|=======|=========|=========|:======+ | |
- | | | | | | : | | | |: | |
-+------+-----+ +-------+--+ | | +--+-----+---+ +--------+---+ | +-----+---+ | |: | |
-| hypergraph | | affy |<-----------+ | | biostrings | | annotate | | | biomart | | |: | |
-+------------+ +----------+ | | | +------------+ +------------+ | +---------+ | |: | |
- ^ ^ ^ ^ | | | ^ ^ | ^ | |: | |
- | | | | | | | | | | | | |: | |
- +---+---+ +----------------+ | ++--------+ | | | | +--+-----+----+-+ +--------+------+ |: | |
- | graph | | preprocesscore | | | affyio | | | | | | annotationdbi | | genomicranges +--|:-----------+ |
- +-------+ +----------------+ | +---------+ | | | | +---------------+ +---------------+ |: |
- ^ | | | | | ^ ^ ^ ^ |: |
- | | | | | | | | | | |: |
- | ++--------------+-+ | | +---------|-----------------+ | | | |: |
- | | biocinstaller | | | | | | | | |: |
- | +-----------------+ | | | | +----------------------|--------+ | |: |
- | | | | | | | | |: |
- | | | | +---+---+-+ +-+-----------++ |: |
- | | | | | xvector | | genomeinfodb | |: |
- | | | | +---------+ +--------------+ |: |
- | | | | ^ ^ |: |
- | | | | | | |: |
- | +----------+ | | | +---+-----+ | |: |
- | | multtest | | | | | iranges +-------------------------+ |: |
- | +----------+ | | | +-----+---+ |: |
- | ^ | | | ^ : |: |
- | | +-+--+--+-+ | : |: |
- | +--------------+ biobase +-------|-:--------------------------------------------------|:---------------+
- | +---------+ | v |v
- | ^ +---+-------+ +----------+---+
- | | +----->| s4vectors | | biocparallel |
- | | | +-----------+ +--------------+
- | | | ^
- | | | |
- | | | +---------------------------------------------------+
- | | | |
- | +-----+--+---+-+ +----------+
+ +-------+ +------------+
+ | edger | | cummerbund |
+ +-------+ +------------+
+ ^ ^
+ | |
+ +---+---+ +------------+ +--------+ +---+--+
+ | limma | | hilbertvis | | qvalue | | gviz |
+ +-------+ +------------+ +--------+ +------+
+ ^ ^
+ : |
+ : +-----------+ +------+-----+
+ +------+------+ | ensembldb +-------------------------->| biovizbase |
+ |cAAA go.db | +-----------+ +------+-----+
+ +-------------+ ^ ^
+ | |
+ +-------+-------+ +----------+--------+
+ +------------------------------------------------------------------>| annotationhub | | variantannotation |
+ | +---------------+ +-------------------+
+ | ^ ^ ^ ^
+ | | | | |
+ | | | +------------+----+ +-+---------+
+ | | | | genomicfeatures | | bsgenome |
+ +------------+-----------+ +--------------+ | | +-----------------+ +-----------+
+ | interactivedisplaybase | | altcdfenvs | | | ^ ^ ^
+ +------------------------+ +--------------+ | | | | |
+ ^ ^ ^ ^ | | | +--+-------+--+
+ | | | | | | | | rtracklayer |
+ | +------------------------+ | | +-------------------------------------+ | | +-------------+
+ | | | | | | | ^
+ | | +-----------++ | | | +-------------+ |
+ | | | makecdfenv | | | +-----------+ | | +----------+--------+
+ | | +------------+ | | +-------------------->| shortread |<----------|---------------+ genomicalignments |
+ | | ^ | | | +-----------+ | | +-------------------+
+ | | | | | | | | ^ ^
+ | | | | | | | | | |
+ | | | | | | | | +-----------+--+ +--------+-------------+
+ | | | +---------------------+ +------------------------------------>| rsamtools | | summarizedexperiment |
+ | | | | | | | | | +--------------+ +----------------------+
+ | | | | | | | | | ^ ^: ^ ^ ^
+ | | | | | | | | | | |: : | |
+ | | | | | | | +=====|=======|=========|=========|:======+ | |
+ | | | | | | | : | | | |: | |
+ | | +-------+--+ | | +--+-----+---+ +--------+---+ | +-----+---+ | |: | |
+ | | | affy |<-----------+ | | biostrings | | annotate | | | biomart | | |: | |
+ | | +----------+ | | | +------------+ +------------+ | +---------+ | |: | |
+ | | ^ ^ ^ | | | ^ ^ | ^ | |: | |
+ | | | | | | | | | | | | | |: | |
+ | | +----------------+ | ++--------+ | | | | +--+-----+----+-+ +--------+------+ |: | |
+ | | | preprocesscore | | | affyio | | | | | | annotationdbi | | genomicranges +--|:-----------+ |
+ | | +----------------+ | +---------+ | | | | +---------------+ +---------------+ |: |
+ | | | | | | | ^ ^ ^ ^ |: |
+ | | | | | | | | | | | |: |
+ | | ++--------------+-+ | | +---------|-----------------+ | | | |: |
+ | | | biocinstaller | | | | | | | | |: |
+ | | +-----------------+ | | | | +----------------------|--------+ | |: |
+ | | | | | | | | | |: |
+ | | | | | +---+---+-+ +-+-----------++ |: |
+ | | | | | | xvector | | genomeinfodb | |: |
+ | | | | | +---------+ +--------------+ |: |
+ | | | | | ^ ^ |: |
+ | | | | | | | |: |
+ | ++-----------+ +----------+ | | | +---+-----+ | |: |
+ | | hypergraph | | multtest | | | | | iranges +-------------------------+ |: |
+ | +------------+ +----------+ | | | +-----+---+ |: |
+ | ^ ^ | | | ^ : |: |
+ | | | +-+--+--+-+ | : |: |
+ | | +--------------+ biobase +-------|-:--------------------------------------------------|:---------------+
+ | | +---------+ | v |v
+ | +---+---+ ^ +---+-------+ +----------+---+
+ | | graph |<-----------------------------+ | +----->| s4vectors | | biocparallel |
+ | +-------+ | | | +-----------+ +--------------+
+ | | | | ^
+ | | | | |
+ | | | | +---------------------------------------------------+
+ | | | | |
+ | +--+--+--+---+-+ +----------+
+------------------------------------------+ biocgenerics +------------------------------------------------------------------>| snpstats |
+--------------+ +----------+