No superclasses
Subclasses:
- EnsEMBL::Web::ImageConfig::Vblastview
- EnsEMBL::Web::ImageConfig::Vkar2view
- EnsEMBL::Web::ImageConfig::Vkaryotype2
- EnsEMBL::Web::ImageConfig::Vmap2view
- EnsEMBL::Web::ImageConfig::fake
- EnsEMBL::Web::ImageConfig::genesnpview_gene
- EnsEMBL::Web::ImageConfig::genesnpview_transcript
- EnsEMBL::Web::ImageConfig::genesnpview_transcripts_bottom
- EnsEMBL::Web::ImageConfig::genesnpview_transcripts_top
- EnsEMBL::Web::ImageConfig::ldview
- EnsEMBL::Web::ImageConfig::primerview
- EnsEMBL::Web::ImageConfig::thjviewbottom
- EnsEMBL::Web::ImageConfig::thjviewchrom
- EnsEMBL::Web::ImageConfig::thjviewtop
- EnsEMBL::Web::ImageConfig::tsv_transcript
Overview
Accessor
Add_dna_align_feature...
Add_gene...
Add_protein_align_feature...
Method
Unknown
- TRIM
- _add_flat_file_track
- _check_menus
- _merge
- _set
- _set_core
- _update_missing
- add_alignments
- add_artefacts
- add_das_track
- add_decorations
- add_gene
- add_marker_feature
- add_misc_feature
- add_oligo_probe
- add_option
- add_options
- add_prediction_transcript
- add_protein_align_feature
- add_protein_feature
- add_qtl_feature
- add_regulation_feature
- add_repeat_feature
- add_settings
- add_simple_feature
- add_synteny
- add_track
- add_tracks
- add_variation_feature
- artefacts
- cache
- container_width
- core_objects
- create_option
- create_submenu
- create_track
- get_node
- get_parameter
- get_parameters
- get_track_key
- get_user_settings
- glyphset_configs
- image_width
- load_configured_das
- load_tracks
- load_user_vert_tracks
- modify_configs
- remove_artefacts
- reset
- reset_subsection
- save
- scalex
- set_parameter
- set_parameters
- set_species
- set_width
- slice_number
- subsections
- title
- transform
- turn_off
- turn_on
- update_config_from_parameter
- update_from_input
Methods
- add_assemblies
Add_dna_align_feature.... loop through all core databases - and attach the dna align features from the dna_align_feature tables... these are added to one of four menus: cdna/mrna, est, rna, other depending whats in the web_data column in the database
View source
add_ditag_feature
Add_gene.... loop through all core databases - and attach the gene features from the gene tables... there are a number of menus sub-types these are added to: * gene # genes * transcript # ordinary transcripts * alignslice_transcript # transcripts in align slice co-ordinates * tse_transcript # transcripts in collapsed intro co-ords * tsv_transcript # transcripts in collapsed intro co-ords * gsv_transcript # transcripts in collapsed gene co-ords depending on which menus are configured
View source
add_dna_align_feature
Add_protein_align_feature.... loop through all core databases - and attach the protein align features from the protein_align_feature tables...
View source
altered
Accessor. Set to one if the configuration has been updated...
View source
bgcolor
Accessor.
View source
bgcolour
Accessor.
View source
colourmap
Accessor.
View source
create_menus
load_tracks - loads in various database derived tracks; loop through core like dbs, compara like dbs, funcgen like dbs; variation like dbs
View source
image_height
Accessor.
View source
load_user_tracks
Get the tracks that are temporarily stored - as "files" not in the DB....
View source
new
View source
species_defs
Accessor.
View source
storable
Accessor. Set whether this ViewConfig is changeable by the User, and hence needs to access the database to set storable do $view_config->storable = 1; in SC code...
View source
texthelper
Accessor.
View source
tree
create_menus - takes an "associate array" i.e. ordered key value pairs to configure the menus to be seen on the display.. key and value pairs are the code and the text of the menu...
View source