DeepBlueR: DeepBlueR

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Accessing the DeepBlue Epigenetics Data Server through R.

Author
Felipe Albrecht, Markus List
Date of publication
None
Maintainer
Felipe Albrecht <felipe.albrecht@mpi-inf.mpg.de>, Markus List <markus.list@mpi-inf.mpg.de>
License
GPL (>=2.0)
Version
1.0.5

View on Bioconductor

Man pages

deepblue_aggregate
aggregate
deepblue_batch_export_results
batch_export_results
deepblue_cancel_request
cancel_request
deepblue_chromosomes
chromosomes
deepblue_collection_experiments_count
collection_experiments_count
deepblue_column_types
get columns
DeepBlueCommand-class
DeepBlueCommand class
deepblue_commands
commands
deepblue_convert_to_df
convert_to_df
deepblue_convert_to_grange
convert_to_grange
deepblue_count_regions
count_regions
deepblue_coverage
coverage
deepblue_debug_VERBOSE
Verbose
deepblue_diff
diff
deepblue_download_request_data
deepblue_download_request_data
deepblue_download_request_data-DeepBlueCommand-method
deepblue_download_request_data
deepblue_echo
echo
deepblue_extend
extend
deepblue_extract_ids
extract_ids
deepblue_extract_names
extract_names
deepblue_faceting_experiments
faceting_experiments
deepblue_filter_regions
filter_regions
deepblue_flank
flank
deepblue_get_biosource_children
get_biosource_children
deepblue_get_biosource_parents
get_biosource_parents
deepblue_get_biosource_related
get_biosource_related
deepblue_get_biosource_synonyms
get_biosource_synonyms
deepblue_get_experiments_by_query
get_experiments_by_query
deepblue_get_regions
get_regions
deepblue_get_request_data
get_request_data
deepblue_info
info
deepblue_input_regions
input_regions
deepblue_intersection
intersection
deepblue_is_biosource
is_biosource
deepblue_list_annotations
list_annotations
deepblue_list_biosources
list_biosources
deepblue_list_column_types
list_column_types
deepblue_list_epigenetic_marks
list_epigenetic_marks
deepblue_list_experiments
list_experiments
deepblue_list_expressions
list_expressions
deepblue_list_gene_models
list_gene_models
deepblue_list_genes
list_genes
deepblue_list_genomes
list_genomes
deepblue_list_in_use
list_in_use
deepblue_list_projects
list_projects
deepblue_list_recent_experiments
list_recent_experiments
deepblue_list_requests
list_requests
deepblue_list_samples
list_samples
deepblue_list_similar_biosources
list_similar_biosources
deepblue_list_similar_epigenetic_marks
list_similar_epigenetic_marks
deepblue_list_similar_experiments
list_similar_experiments
deepblue_list_similar_genomes
list_similar_genomes
deepblue_list_similar_projects
list_similar_projects
deepblue_list_similar_techniques
list_similar_techniques
deepblue_list_techniques
list_techniques
deepblue_merge_queries
merge_queries
deepblue_name_to_id
name_to_id
deepblue_parse_gtf
deepblue_parse_gtf
deepblue_preview_experiment
preview_experiment
deepblue_query_cache
query_cache
deepblue_query_experiment_type
query_experiment_type
deepblue_score_matrix
score_matrix
deepblue_search
search
deepblue_select_annotations
select_annotations
deepblue_select_column
select column
deepblue_select_experiments
select_experiments
deepblue_select_expressions
select_expressions
deepblue_select_genes
select_genes
deepblue_select_regions
select_regions
deepblue_switch_get_request_data
switch_get_request_data
deepblue_tiling_regions
tiling_regions
deepblue_URL
deepblue URL
deepblue_USER_KEY
default User Key
deepblue_wait_request
deepblue_wait_request
show-DeepBlueCommand-method
show DeepBlue command object
xml.rpc
xml.rpc

Files in this package

DeepBlueR/DESCRIPTION
DeepBlueR/NAMESPACE
DeepBlueR/NEWS
DeepBlueR/R
DeepBlueR/R/batchExport.R
DeepBlueR/R/class_DeepBlueCommand.R
DeepBlueR/R/deepblue.R
DeepBlueR/R/helperFunctions.R
DeepBlueR/R/internalFunctions.R
DeepBlueR/R/methods_DeepBlueCommand.R
DeepBlueR/README.md
DeepBlueR/build
DeepBlueR/build/api_auto.template
DeepBlueR/build/deepblue_r.py
DeepBlueR/build/examples
DeepBlueR/build/examples/deepblue.add_annotation.R
DeepBlueR/build/examples/deepblue.add_biosource.R
DeepBlueR/build/examples/deepblue.add_epigenetic_mark.R
DeepBlueR/build/examples/deepblue.add_experiment.R
DeepBlueR/build/examples/deepblue.add_gene_model.R
DeepBlueR/build/examples/deepblue.add_genome.R
DeepBlueR/build/examples/deepblue.add_project.R
DeepBlueR/build/examples/deepblue.add_sample.R
DeepBlueR/build/examples/deepblue.add_sample_from_gsm.R
DeepBlueR/build/examples/deepblue.add_technique.R
DeepBlueR/build/examples/deepblue.add_user_to_project.R
DeepBlueR/build/examples/deepblue.aggregate.R
DeepBlueR/build/examples/deepblue.cancel_request.R
DeepBlueR/build/examples/deepblue.change_extra_metadata.R
DeepBlueR/build/examples/deepblue.chromosomes.R
DeepBlueR/build/examples/deepblue.clone_dataset.R
DeepBlueR/build/examples/deepblue.collection_experiments_count.R
DeepBlueR/build/examples/deepblue.column_types.R
DeepBlueR/build/examples/deepblue.commands.R
DeepBlueR/build/examples/deepblue.count_regions.R
DeepBlueR/build/examples/deepblue.coverage.R
DeepBlueR/build/examples/deepblue.create_column_type_calculated.R
DeepBlueR/build/examples/deepblue.create_column_type_category.R
DeepBlueR/build/examples/deepblue.create_column_type_range.R
DeepBlueR/build/examples/deepblue.create_column_type_simple.R
DeepBlueR/build/examples/deepblue.echo.R
DeepBlueR/build/examples/deepblue.extend.R
DeepBlueR/build/examples/deepblue.extract_ids.R
DeepBlueR/build/examples/deepblue.extract_names.R
DeepBlueR/build/examples/deepblue.faceting_experiments.R
DeepBlueR/build/examples/deepblue.filter_regions.R
DeepBlueR/build/examples/deepblue.find_pattern.R
DeepBlueR/build/examples/deepblue.flank.R
DeepBlueR/build/examples/deepblue.get_biosource_children.R
DeepBlueR/build/examples/deepblue.get_biosource_parents.R
DeepBlueR/build/examples/deepblue.get_biosource_related.R
DeepBlueR/build/examples/deepblue.get_biosource_synonyms.R
DeepBlueR/build/examples/deepblue.get_experiments_by_query.R
DeepBlueR/build/examples/deepblue.get_regions.R
DeepBlueR/build/examples/deepblue.get_request_data.R
DeepBlueR/build/examples/deepblue.get_state.R
DeepBlueR/build/examples/deepblue.info.R
DeepBlueR/build/examples/deepblue.input_regions.R
DeepBlueR/build/examples/deepblue.intersection.R
DeepBlueR/build/examples/deepblue.is_biosource.R
DeepBlueR/build/examples/deepblue.list_annotations.R
DeepBlueR/build/examples/deepblue.list_biosources.R
DeepBlueR/build/examples/deepblue.list_column_types.R
DeepBlueR/build/examples/deepblue.list_epigenetic_marks.R
DeepBlueR/build/examples/deepblue.list_experiments.R
DeepBlueR/build/examples/deepblue.list_expressions.R
DeepBlueR/build/examples/deepblue.list_gene_models.R
DeepBlueR/build/examples/deepblue.list_genes.R
DeepBlueR/build/examples/deepblue.list_genomes.R
DeepBlueR/build/examples/deepblue.list_in_use.R
DeepBlueR/build/examples/deepblue.list_projects.R
DeepBlueR/build/examples/deepblue.list_recent_experiments.R
DeepBlueR/build/examples/deepblue.list_requests.R
DeepBlueR/build/examples/deepblue.list_samples.R
DeepBlueR/build/examples/deepblue.list_similar_biosources.R
DeepBlueR/build/examples/deepblue.list_similar_epigenetic_marks.R
DeepBlueR/build/examples/deepblue.list_similar_experiments.R
DeepBlueR/build/examples/deepblue.list_similar_genomes.R
DeepBlueR/build/examples/deepblue.list_similar_projects.R
DeepBlueR/build/examples/deepblue.list_similar_techniques.R
DeepBlueR/build/examples/deepblue.list_techniques.R
DeepBlueR/build/examples/deepblue.merge_queries.R
DeepBlueR/build/examples/deepblue.name_to_id.R
DeepBlueR/build/examples/deepblue.preview_experiment.R
DeepBlueR/build/examples/deepblue.query_cache.R
DeepBlueR/build/examples/deepblue.query_experiment_type.R
DeepBlueR/build/examples/deepblue.remove.R
DeepBlueR/build/examples/deepblue.score_matrix.R
DeepBlueR/build/examples/deepblue.search.R
DeepBlueR/build/examples/deepblue.select_annotations.R
DeepBlueR/build/examples/deepblue.select_experiments.R
DeepBlueR/build/examples/deepblue.select_expressions.R
DeepBlueR/build/examples/deepblue.select_genes.R
DeepBlueR/build/examples/deepblue.select_regions.R
DeepBlueR/build/examples/deepblue.set_biosource_parent.R
DeepBlueR/build/examples/deepblue.set_biosource_synonym.R
DeepBlueR/build/examples/deepblue.set_project_public.R
DeepBlueR/build/examples/deepblue.tiling_regions.R
DeepBlueR/build/examples/deepblue.upload_chromosome.R
DeepBlueR/build/serialize.R
DeepBlueR/build/update_package.R
DeepBlueR/build/vignette.rds
DeepBlueR/demo
DeepBlueR/demo/00Index
DeepBlueR/demo/use_case1.R
DeepBlueR/demo/use_case2.R
DeepBlueR/demo/use_case3.R
DeepBlueR/demo/use_case4.R
DeepBlueR/demo/use_case5.R
DeepBlueR/inst
DeepBlueR/inst/CITATION
DeepBlueR/inst/doc
DeepBlueR/inst/doc/DeepBlueR.R
DeepBlueR/inst/doc/DeepBlueR.Rmd
DeepBlueR/inst/doc/DeepBlueR.html
DeepBlueR/logo.png
DeepBlueR/man
DeepBlueR/man/DeepBlueCommand-class.Rd
DeepBlueR/man/deepblue_URL.Rd
DeepBlueR/man/deepblue_USER_KEY.Rd
DeepBlueR/man/deepblue_aggregate.Rd
DeepBlueR/man/deepblue_batch_export_results.Rd
DeepBlueR/man/deepblue_cancel_request.Rd
DeepBlueR/man/deepblue_chromosomes.Rd
DeepBlueR/man/deepblue_collection_experiments_count.Rd
DeepBlueR/man/deepblue_column_types.Rd
DeepBlueR/man/deepblue_commands.Rd
DeepBlueR/man/deepblue_convert_to_df.Rd
DeepBlueR/man/deepblue_convert_to_grange.Rd
DeepBlueR/man/deepblue_count_regions.Rd
DeepBlueR/man/deepblue_coverage.Rd
DeepBlueR/man/deepblue_debug_VERBOSE.Rd
DeepBlueR/man/deepblue_diff.Rd
DeepBlueR/man/deepblue_download_request_data-DeepBlueCommand-method.Rd
DeepBlueR/man/deepblue_download_request_data.Rd
DeepBlueR/man/deepblue_echo.Rd
DeepBlueR/man/deepblue_extend.Rd
DeepBlueR/man/deepblue_extract_ids.Rd
DeepBlueR/man/deepblue_extract_names.Rd
DeepBlueR/man/deepblue_faceting_experiments.Rd
DeepBlueR/man/deepblue_filter_regions.Rd
DeepBlueR/man/deepblue_flank.Rd
DeepBlueR/man/deepblue_get_biosource_children.Rd
DeepBlueR/man/deepblue_get_biosource_parents.Rd
DeepBlueR/man/deepblue_get_biosource_related.Rd
DeepBlueR/man/deepblue_get_biosource_synonyms.Rd
DeepBlueR/man/deepblue_get_experiments_by_query.Rd
DeepBlueR/man/deepblue_get_regions.Rd
DeepBlueR/man/deepblue_get_request_data.Rd
DeepBlueR/man/deepblue_info.Rd
DeepBlueR/man/deepblue_input_regions.Rd
DeepBlueR/man/deepblue_intersection.Rd
DeepBlueR/man/deepblue_is_biosource.Rd
DeepBlueR/man/deepblue_list_annotations.Rd
DeepBlueR/man/deepblue_list_biosources.Rd
DeepBlueR/man/deepblue_list_column_types.Rd
DeepBlueR/man/deepblue_list_epigenetic_marks.Rd
DeepBlueR/man/deepblue_list_experiments.Rd
DeepBlueR/man/deepblue_list_expressions.Rd
DeepBlueR/man/deepblue_list_gene_models.Rd
DeepBlueR/man/deepblue_list_genes.Rd
DeepBlueR/man/deepblue_list_genomes.Rd
DeepBlueR/man/deepblue_list_in_use.Rd
DeepBlueR/man/deepblue_list_projects.Rd
DeepBlueR/man/deepblue_list_recent_experiments.Rd
DeepBlueR/man/deepblue_list_requests.Rd
DeepBlueR/man/deepblue_list_samples.Rd
DeepBlueR/man/deepblue_list_similar_biosources.Rd
DeepBlueR/man/deepblue_list_similar_epigenetic_marks.Rd
DeepBlueR/man/deepblue_list_similar_experiments.Rd
DeepBlueR/man/deepblue_list_similar_genomes.Rd
DeepBlueR/man/deepblue_list_similar_projects.Rd
DeepBlueR/man/deepblue_list_similar_techniques.Rd
DeepBlueR/man/deepblue_list_techniques.Rd
DeepBlueR/man/deepblue_merge_queries.Rd
DeepBlueR/man/deepblue_name_to_id.Rd
DeepBlueR/man/deepblue_parse_gtf.Rd
DeepBlueR/man/deepblue_preview_experiment.Rd
DeepBlueR/man/deepblue_query_cache.Rd
DeepBlueR/man/deepblue_query_experiment_type.Rd
DeepBlueR/man/deepblue_score_matrix.Rd
DeepBlueR/man/deepblue_search.Rd
DeepBlueR/man/deepblue_select_annotations.Rd
DeepBlueR/man/deepblue_select_column.Rd
DeepBlueR/man/deepblue_select_experiments.Rd
DeepBlueR/man/deepblue_select_expressions.Rd
DeepBlueR/man/deepblue_select_genes.Rd
DeepBlueR/man/deepblue_select_regions.Rd
DeepBlueR/man/deepblue_switch_get_request_data.Rd
DeepBlueR/man/deepblue_tiling_regions.Rd
DeepBlueR/man/deepblue_wait_request.Rd
DeepBlueR/man/show-DeepBlueCommand-method.Rd
DeepBlueR/man/xml.rpc.Rd
DeepBlueR/vignettes
DeepBlueR/vignettes/DeepBlueR.Rmd
DeepBlueR/vignettes/logo.png