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Function getBioMartData [snplist v0.18.1]
keywords
database
title
getBioMartData
description
A function leveraging the biomaRt package to retrieve gene chromosome and start and end positions from Ensembl.
Function setSNPTable [snplist v0.18.1]
keywords
database
title
setSNPTable
description
Takes a file or data.frame object with columns 'chr','pos', and 'rsid', and creates an SQLite table of the information. Returns a count of the number of SNPs in the table.
Function setGeneTable [snplist v0.18.1]
keywords
database
title
setGeneTable
description
Takes a data.frame object with columns 'gene','chr','start', and 'end', and creates an SQLite table of the information. Returns a count of the number of genes in the table.
Function makeGeneSet [snplist v0.18.1]
keywords
database
title
makeGeneSet
description
This function uses existing SQLite tables (from setGeneTable and setSNPTable) to make SNP sets. The SNP Set for each gene is the collection of SNPs located either between the start and end locations of the gene, or within a specified neighborhood around the gene. The SNP Sets are stored in the SQLite database, and returned as a list object.
Function sqrlOff [SQRL v0.6.3]
keywords
database
title
Close Connections and Deactivate Package
description
Closes all connections, detaches the interface environment (SQRL:Face) from the search path, and unloads the SQRL namespace. No further communication with any data source will be possible through SQRL (unless it is reloaded).
Function sqrlSource [SQRL v0.6.3]
keywords
database
title
Define New Data Sources
description
Defines new data sources and creates the interface functions for communicating with them. Can also redefine and/or delete existing sources.
Function gmConnectServer [gmDatabase v0.5.0]
keywords
database
title
Geometallurgy Database connection
description
A geometallurgy database is a database on a relational database server. It can handle very general and recursive information for the transparent access to whole projects from a statistical analysis software.
Function gmSQLValues [gmDatabase v0.5.0]
keywords
database
title
Format vector in parenthesis and SQL quote it
description
Formats values for use in SQL statements
Function BerkeleyDB Cursors [RBerkeley v0.7-5]
keywords
database
title
BerkeleyDB Database Operations and Methods
description
Low-level calls to the BerkeleyDB API. These functions simply wrap most of the DB functionality and expose it at the R level. Documentation on usage, valid arguments, and flags from the official Oracle C API should be all that is required to correctly use this API. Database Cursors Description db_cursor Create a cursor dbcursor_close Close a cursor dbcursor_count Return count of duplicates dbcursor_del Delete by cursor dbcursor_dup Duplicate a cursor dbcursor_get Retrieve by cursor dbcursor_pget Retrieve by cursor dbcursor_put Store by cursor dbcursor_set_priority Set the cursor's cache priority
Function BerkeleyDB Mutexes [RBerkeley v0.7-5]
keywords
database
title
BerkeleyDB Database Operations and Methods
description
Low-level calls to the BerkeleyDB API. These functions simply wrap most of the DB functionality and expose it at the R level. Documentation on usage, valid arguments, and flags from the official Oracle C API should be all that is required to correctly use this API. Mutexes Description dbenv_mutex_alloc Allocate a mutex dbenv_mutex_free Free a mutex dbenv_mutex_lock Lock a mutex dbenv_mutex_stat Mutex statistics dbenv_mutex_unlock Unlock a mutex Mutexes Configuration Description dbenv_mutex_set_align* Configure mutex alignment dbenv_mutex_set_increment* Configure number of additional mutexes dbenv_mutex_set_max* Configure total number of mutexes dbenv_mutex_set_tas_spins* Configure test-and-set mutex spin count