Author: tille
Date: 2014-10-21 04:54:05 +0000 (Tue, 21 Oct 2014)
New Revision: 18365
Modified:
trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa
Log:
Changed dependency of genomicalignments
Modified: trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa
===================================================================
--- trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa 2014-10-21 04:47:18 UTC (rev 18364)
+++ trunk/packages/R/r-bioc-000-dependency-scheme/3.0/BioC_3.0-dependency-tree.ditaa 2014-10-21 04:54:05 UTC (rev 18365)
@@ -7,56 +7,56 @@
| |
+---+---+ +-----+-------+ +-----------+
| gviz | | rtracklayer | | shortread |
- +-------+ +-------------+ +-----------+
- ^ ^ ^
- | | |
- +-----+------+ +--+-------------+--+
- +--------------+ | biovizbase |<-------------+ genomicalignments |
- | altcdfenvs | +------------+ +-------------------+
- +--------------+ ^ ^ ^
- ^ ^ ^ | | |
- | | | +-------+-----------+ +-----+----+ |
- +----------------------------------+ | | | variantannotation |<-+ | bsgenome | |
- | | | +-------------------+ | +----------+ |
- | +-----------++ | ^ ^ | ^ |
- | | makecdfenv | | | : | | |
- | +------------+ | +---------+-------+ : +--+------+-+ |
- | ^ | +------------------------------------->| genomicfeatures | : | rsamtools | |
- | | | | +-----------------+ : +-----------+ |
- | | | | ^ ^ : ^ ^ |
- | | | | | | : | | |
- | | +-------------------------+ | +-----------------------------------------------------------+ | |
- | +------+---+ | | | | | : | |
-+------+-----+ | affy | +--+--+--+---+ +--------------+ +---------+ | | : | |
-| hypergraph | +----------+ | biostrings | |cAAA annotate | | biomart +-----+ | : | |
-+------------+ ^ ^ ^ ^ +------------+ +--------------+ +---------+ | : | |
- ^ | | | | ^ ^ ^ | : | |
- | +-----------+ | | +-----------------+ | | | | +--------------+ |
- | | | | | | | | | | : |
- +---+---+ +------+---------+ | | | | +------+--------+ | +----------+--+-+ : |
- | graph | | preprocesscore | | | | | | annotationdbi |----+ | genomicranges | : |
- +-------+ +----------------+ | | | | +---------------+ +---------------+ : |
- ^ | | | | ^ ^ ^ ^ : |
- | | | | | | | | | : |
- | | | | +------------------|-------------+ | | | : |
- | +-------------+ | | | | | | | : |
- | | | | | | +----------------------|---------------+ + : |
- | | | | | | | | +---------+ : |
- | | | | | | | | | : |
- | | | | | +---+---+-+ +-+-----------++ : |
- | | | | | | xvector | | genomeinfodb | : |
- | | | | | +---------+ +--------------+ : |
- | | | | | ^ ^ : |
- | | | | | | | : |
- | +------+--------+ +---+-----+ +----+--+-+ +---+-----+ | : |
- | | biocinstaller | | affyio | | biobase | | iranges +-------------------------+ : |
- | +---------------+ +---------+ +---------+ +---------+ : |
- | ^ ^ : |
- | | | : |
- +---------------------------------------------+ | | : |
- | | | : |
- | | +--+--------+ +--------------+ : |
- | | +----------------->| s4vectors | | biocparallel +--------------------------------------+
+ +-------+ +-------------+ +---+-------+
+ ^ ^ ^ :
+ | | | v
+ +-----+------+ +-+------+--+
+ +--------------+ | biovizbase |<------------------| bsgenome |
+ | altcdfenvs | +------------+ +-----------+
+ +--------------+ ^ ^
+ ^ ^ ^ | |
+ | | | +---+---------------+ +----------+--------+
+ +----------------------------------+ | | | variantannotation | | genomicalignments |
+ | | | +-------------------+ +----------+--------+
+ | +-----------++ | ^ ^ ^ ^ ^
+ | | makecdfenv | | | : | | |
+ | +------------+ | +---------+-------+ : +--+------+-+ |
+ | ^ | +------------------------------------->| genomicfeatures | : | rsamtools | |
+ | | | | +-----------------+ : +-----------+ |
+ | | | | ^ ^ : ^ ^ |
+ | | | | | | : | | |
+ | | +-------------------------+ | +-----------------------------------------------------------+ | |
+ | +------+---+ | | | | | : | |
++------+-----+ | affy | +--+--+--+---+ +--------------+ +---------+ | | : | |
+| hypergraph | +----------+ | biostrings | |cAAA annotate | | biomart +-----+ | : | |
++------------+ ^ ^ ^ ^ +------------+ +--------------+ +---------+ | : | |
+ ^ | | | | ^ ^ ^ | : | |
+ | +-----------+ | | +-----------------+ | | | | +--------------+ |
+ | | | | | | | | | | : |
+ +---+---+ +------+---------+ | | | | +------+--------+ | +----------+--+-+ : |
+ | graph | | preprocesscore | | | | | | annotationdbi |----+ | genomicranges | : |
+ +-------+ +----------------+ | | | | +---------------+ +---------------+ : |
+ ^ | | | | ^ ^ ^ ^ : |
+ | | | | | | | | | : |
+ | | | | +------------------|-------------+ | | | : |
+ | +-------------+ | | | | | | | : |
+ | | | | | | +----------------------|---------------+ + : |
+ | | | | | | | | +---------+ : |
+ | | | | | | | | | : |
+ | | | | | +---+---+-+ +-+-----------++ : |
+ | | | | | | xvector | | genomeinfodb | : |
+ | | | | | +---------+ +--------------+ : |
+ | | | | | ^ ^ : |
+ | | | | | | | : |
+ | +------+--------+ +---+-----+ +----+--+-+ +---+-----+ | : |
+ | | biocinstaller | | affyio | | biobase | | iranges +-------------------------+ : |
+ | +---------------+ +---------+ +---------+ +---------+ : |
+ | ^ ^ : |
+ | | | : |
+ +---------------------------------------------+ | | : |
+ | | | : |
+ | | +--+--------+ +--------------+ : |
+ | | +----------------->| s4vectors | | biocparallel +--------------------------------+
| | | +-----------+ +--------------+ :
| | | ^ :
| | | | :