RISmed: Download Content from NCBI Databases

A set of tools to extract bibliographic content from the National Center for Biotechnology Information (NCBI) databases, including PubMed. The name RISmed is a portmanteau of RIS (for Research Information Systems, a common tag format for bibliographic data) and PubMed.

AuthorStephanie Kovalchik [aut, cre]
Date of publication2016-11-02 18:17:27
MaintainerStephanie Kovalchik <s.a.kovalchik@gmail.com>
LicenseGPL (>= 2)
Version2.1.6

View on CRAN

Man pages

AbstractText: Extracts 'AbstractText' from 'Medline' object.

AbstractText-methods: ~~ Methods for Function 'AbstractText' in Package 'RISmed' ~~

Acronym: Extracts 'Acronym' from 'Medline' object.

Acronym-methods: ~~ Methods for Function 'Acronym' in Package 'RISmed' ~~

Affiliation: Extracts 'Affiliation' from 'Medline' object.

Affiliation-methods: ~~ Methods for Function 'Affiliation' in Package 'RISmed' ~~

Agency: Extracts 'Agency' from 'Medline' object.

Agency-methods: ~~ Methods for Function 'Agency' in Package 'RISmed' ~~

ArticleId: Extracts 'ArticleId' from 'Medline' object.

ArticleId-methods: ~~ Methods for Function 'ArticleId' in Package 'RISmed' ~~

ArticleTitle: Extracts 'ArticleTitle' from 'Medline' object.

ArticleTitle-methods: ~~ Methods for Function 'ArticleTitle' in Package 'RISmed' ~~

Author: Extracts 'Author' from 'Medline' object.

Author-methods: ~~ Methods for Function 'Author' in Package 'RISmed' ~~

Cited: Number of citations

Cited-methods: ~~ Methods for Function 'Cited' in Package 'RISmed' ~~

c-methods: Concatenate Medline

CollectiveName: Extracts 'CollectiveName' from 'Medline' object.

CollectiveName-methods: ~~ Methods for Function 'CollectiveName' in Package 'RISmed'...

CopyrightInformation: Extracts 'CopyrightInformation' from 'Medline' object.

CopyrightInformation-methods: ~~ Methods for Function 'CopyrightInformation' in Package...

count: Count of record results for EUtilsQuery

Country: Extracts 'Country' from 'Medline' object.

Country-methods: ~~ Methods for Function 'Country' in Package 'RISmed' ~~

DayAccepted: Extracts 'DayAccepted' from 'Medline' object.

DayAccepted-methods: ~~ Methods for Function 'DayAccepted' in Package 'RISmed' ~~

DayEpublish: Extracts 'DayEpublish' from 'Medline' object.

DayEpublish-methods: ~~ Methods for Function 'DayEpublish' in Package 'RISmed' ~~

DayPmc: Extracts 'DayPmc' from 'Medline' object.

DayPmc-methods: ~~ Methods for Function 'DayPmc' in Package 'RISmed' ~~

DayPpublish: Extracts 'DayPpublish' from 'Medline' object.

DayPpublish-methods: ~~ Methods for Function 'DayPpublish' in Package 'RISmed' ~~

DayPubmed: Extracts 'DayPubmed' from 'Medline' object.

DayPubmed-methods: ~~ Methods for Function 'DayPubmed' in Package 'RISmed' ~~

DayReceived: Extracts 'DayReceived' from 'Medline' object.

DayReceived-methods: ~~ Methods for Function 'DayReceived' in Package 'RISmed' ~~

ELocationID: Extracts 'ELocationID' from 'Medline' object.

ELocationID-methods: ~~ Methods for Function 'ELocationID' in Package 'RISmed' ~~

EUtilsGet: Results of an NCBI EUtils query

EUtilsQuery: Construct URL to make NCBI EUtils query

EUtilsSummary: Get summary of NCBI EUtils query

EUtilsSummary-class: Class '"EUtilsSummary"'

GrantID: Extracts 'GrantID' from 'Medline' object.

GrantID-methods: ~~ Methods for Function 'GrantID' in Package 'RISmed' ~~

HourAccepted: Extracts 'HourAccepted' from 'Medline' object.

HourAccepted-methods: ~~ Methods for Function 'HourAccepted' in Package 'RISmed' ~~

HourEpublish: Extracts 'HourEpublish' from 'Medline' object.

HourEpublish-methods: ~~ Methods for Function 'HourEpublish' in Package 'RISmed' ~~

HourPmc: Extracts 'HourPmc' from 'Medline' object.

HourPmc-methods: ~~ Methods for Function 'HourPmc' in Package 'RISmed' ~~

HourPpublish: Extracts 'HourPpublish' from 'Medline' object.

HourPpublish-methods: ~~ Methods for Function 'HourPpublish' in Package 'RISmed' ~~

HourPubmed: Extracts 'HourPubmed' from 'Medline' object.

HourPubmed-methods: ~~ Methods for Function 'HourPubmed' in Package 'RISmed' ~~

HourReceived: Extracts 'HourReceived' from 'Medline' object.

HourReceived-methods: ~~ Methods for Function 'HourReceived' in Package 'RISmed' ~~

id: Get ids from EUtilsQuery

ISOAbbreviation: Extracts 'ISOAbbreviation' from 'Medline' object.

ISOAbbreviation-methods: ~~ Methods for Function 'ISOAbbreviation' in Package 'RISmed'...

ISSN: Extracts 'ISSN' from 'Medline' object.

ISSNLinking: Extracts 'ISSNLinking' from 'Medline' object.

ISSNLinking-methods: ~~ Methods for Function 'ISSNLinking' in Package 'RISmed' ~~

ISSN-methods: ~~ Methods for Function 'ISSN' in Package 'RISmed' ~~

Issue: Extracts 'Issue' from 'Medline' object.

Issue-methods: ~~ Methods for Function 'Issue' in Package 'RISmed' ~~

Language: Extracts 'Language' from 'Medline' object.

Language-methods: ~~ Methods for Function 'Language' in Package 'RISmed' ~~

Medline: Class '"Medline"'

MedlinePgn: Extracts 'MedlinePgn' from 'Medline' object.

MedlinePgn-methods: ~~ Methods for Function 'MedlinePgn' in Package 'RISmed' ~~

MedlineTA: Extracts 'MedlineTA' from 'Medline' object.

MedlineTA-methods: ~~ Methods for Function 'MedlineTA' in Package 'RISmed' ~~

Mesh: Extracts 'Mesh' headings from 'Medline' object.

Mesh-methods: ~~ Methods for Function 'Mesh' in Package 'RISmed' ~~

MinuteAccepted: Extracts 'MinuteAccepted' from 'Medline' object.

MinuteAccepted-methods: ~~ Methods for Function 'MinuteAccepted' in Package 'RISmed'...

MinuteEpublish: Extracts 'MinuteEpublish' from 'Medline' object.

MinuteEpublish-methods: ~~ Methods for Function 'MinuteEpublish' in Package 'RISmed'...

MinutePmc: Extracts 'MinutePmc' from 'Medline' object.

MinutePmc-methods: ~~ Methods for Function 'MinutePmc' in Package 'RISmed' ~~

MinutePpublish: Extracts 'MinutePpublish' from 'Medline' object.

MinutePpublish-methods: ~~ Methods for Function 'MinutePpublish' in Package 'RISmed'...

MinutePubmed: Extracts 'MinutePubmed' from 'Medline' object.

MinutePubmed-methods: ~~ Methods for Function 'MinutePubmed' in Package 'RISmed' ~~

MinuteReceived: Extracts 'MinuteReceived' from 'Medline' object.

MinuteReceived-methods: ~~ Methods for Function 'MinuteReceived' in Package 'RISmed'...

MonthAccepted: Extracts 'MonthAccepted' from 'Medline' object.

MonthAccepted-methods: ~~ Methods for Function 'MonthAccepted' in Package 'RISmed'...

MonthEpublish: Extracts 'MonthEpublish' from 'Medline' object.

MonthEpublish-methods: ~~ Methods for Function 'MonthEpublish' in Package 'RISmed'...

MonthPmc: Extracts 'MonthPmc' from 'Medline' object.

MonthPmc-methods: ~~ Methods for Function 'MonthPmc' in Package 'RISmed' ~~

MonthPpublish: Extracts 'MonthPpublish' from 'Medline' object.

MonthPpublish-methods: ~~ Methods for Function 'MonthPpublish' in Package 'RISmed'...

MonthPubmed: Extracts 'MonthPubmed' from 'Medline' object.

MonthPubmed-methods: ~~ Methods for Function 'MonthPubmed' in Package 'RISmed' ~~

MonthReceived: Extracts 'MonthReceived' from 'Medline' object.

MonthReceived-methods: ~~ Methods for Function 'MonthReceived' in Package 'RISmed'...

myeloma: Example of results from 'EUtilsGet'

NlmUniqueID: Extracts 'NlmUniqueID' from 'Medline' object.

NlmUniqueID-methods: ~~ Methods for Function 'NlmUniqueID' in Package 'RISmed' ~~

PMID: Extracts 'PMID' from 'Medline' object.

PMID-methods: ~~ Methods for Function 'PMID' in Package 'RISmed' ~~

print: Print method for EUtilsSummary object

print-method: Print method for Medline object

PublicationStatus: Extracts 'PublicationStatus' from 'Medline' object.

PublicationStatus-methods: ~~ Methods for Function 'PublicationStatus' in Package...

PublicationType: Extracts 'PublicationType' from 'Medline' object.

PublicationType-methods: ~~ Methods for Function 'PublicationType' in Package 'RISmed'...

Query: Extract 'Query' from 'Medline' object.

Query-methods: ~~ Methods for Function 'Query' in Package 'RISmed' ~~

RefSource: Extracts 'RefSource' from 'Medline' object.

RefSource-methods: ~~ Methods for Function 'RefSource' in Package 'RISmed' ~~

RegistryNumber: Extracts 'RegistryNumber' from 'Medline' object.

RegistryNumber-methods: ~~ Methods for Function 'RegistryNumber' in Package 'RISmed'...

RISmed-package: Download content from NCBI databases.

show-Medline-methods: Show method for Medline object

show-methods: Show method for EUtilsSummary object

summary-methods: Summary method for EUtilsSummary object

Title: Extracts 'Title' from 'Medline' object.

Title-methods: ~~ Methods for Function 'Title' in Package 'RISmed' ~~

translation: Get the NCBI query translation from EUtilsQuery

Volume: Extracts 'Volume' from 'Medline' object.

Volume-methods: ~~ Methods for Function 'Volume' in Package 'RISmed' ~~

YearAccepted: Extracts 'YearAccepted' from 'Medline' object.

YearAccepted-methods: ~~ Methods for Function 'YearAccepted' in Package 'RISmed' ~~

YearEpublish: Extracts 'YearEpublish' from 'Medline' object.

YearEpublish-methods: ~~ Methods for Function 'YearEpublish' in Package 'RISmed' ~~

YearPmc: Extracts 'YearPmc' from 'Medline' object.

YearPmc-methods: ~~ Methods for Function 'YearPmc' in Package 'RISmed' ~~

YearPpublish: Extracts 'YearPpublish' from 'Medline' object.

YearPpublish-methods: ~~ Methods for Function 'YearPpublish' in Package 'RISmed' ~~

YearPubmed: Extracts 'YearPubmed' from 'Medline' object.

YearPubmed-methods: ~~ Methods for Function 'YearPubmed' in Package 'RISmed' ~~

YearReceived: Extracts 'YearReceived' from 'Medline' object.

YearReceived-methods: ~~ Methods for Function 'YearReceived' in Package 'RISmed' ~~

Functions

AbstractText Man page
AbstractText,Medline-method Man page
AbstractText-methods Man page
Acronym Man page
Acronym,Medline-method Man page
Acronym-methods Man page
Affiliation Man page
Affiliation,Medline-method Man page
Affiliation-methods Man page
Agency Man page
Agency,Medline-method Man page
Agency-methods Man page
ArticleId Man page
ArticleId,Medline-method Man page
ArticleId-methods Man page
ArticleTitle Man page
ArticleTitle,Medline-method Man page
ArticleTitle-methods Man page
Author Man page
Author,Medline-method Man page
Author-methods Man page
c,ANY,ANY-method Man page
Cited Man page
Cited,EUtilsSummary-method Man page
Cited,Medline-method Man page
Cited-methods Man page
c,Medline-method Man page
CollectiveName Man page
CollectiveName,Medline-method Man page
CollectiveName-methods Man page
CopyrightInformation Man page
CopyrightInformation,Medline-method Man page
CopyrightInformation-methods Man page
Country Man page
Country,Medline-method Man page
Country-methods Man page
DayAccepted Man page
DayAccepted,Medline-method Man page
DayAccepted-methods Man page
DayEpublish Man page
DayEpublish,Medline-method Man page
DayEpublish-methods Man page
DayPmc Man page
DayPmc,Medline-method Man page
DayPmc-methods Man page
DayPpublish Man page
DayPpublish,Medline-method Man page
DayPpublish-methods Man page
DayPubmed Man page
DayPubmed,Medline-method Man page
DayPubmed-methods Man page
DayReceived Man page
DayReceived,Medline-method Man page
DayReceived-methods Man page
ELocationID Man page
ELocationID,Medline-method Man page
ELocationID-methods Man page
EUtilsGet Man page
EUtilsQuery Man page
EUtilsQuery-class Man page
EUtilsSummary Man page
EUtilsSummary-class Man page
GrantID Man page
GrantID,Medline-method Man page
GrantID-methods Man page
HourAccepted Man page
HourAccepted,Medline-method Man page
HourAccepted-methods Man page
HourEpublish Man page
HourEpublish,Medline-method Man page
HourEpublish-methods Man page
HourPmc Man page
HourPmc,Medline-method Man page
HourPmc-methods Man page
HourPpublish Man page
HourPpublish,Medline-method Man page
HourPpublish-methods Man page
HourPubmed Man page
HourPubmed,Medline-method Man page
HourPubmed-methods Man page
HourReceived Man page
HourReceived,Medline-method Man page
HourReceived-methods Man page
ISOAbbreviation Man page
ISOAbbreviation,Medline-method Man page
ISOAbbreviation-methods Man page
ISSN Man page
ISSNLinking Man page
ISSNLinking,Medline-method Man page
ISSNLinking-methods Man page
ISSN,Medline-method Man page
ISSN-methods Man page
Issue Man page
Issue,Medline-method Man page
Issue-methods Man page
Language Man page
Language,Medline-method Man page
Language-methods Man page
Medline Man page
Medline-class Man page
MedlinePgn Man page
MedlinePgn,Medline-method Man page
MedlinePgn-methods Man page
MedlineTA Man page
MedlineTA,Medline-method Man page
MedlineTA-methods Man page
Mesh Man page
Mesh,Medline-method Man page
Mesh-methods Man page
MinuteAccepted Man page
MinuteAccepted,Medline-method Man page
MinuteAccepted-methods Man page
MinuteEpublish Man page
MinuteEpublish,Medline-method Man page
MinuteEpublish-methods Man page
MinutePmc Man page
MinutePmc,Medline-method Man page
MinutePmc-methods Man page
MinutePpublish Man page
MinutePpublish,Medline-method Man page
MinutePpublish-methods Man page
MinutePubmed Man page
MinutePubmed,Medline-method Man page
MinutePubmed-methods Man page
MinuteReceived Man page
MinuteReceived,Medline-method Man page
MinuteReceived-methods Man page
MonthAccepted Man page
MonthAccepted,Medline-method Man page
MonthAccepted-methods Man page
MonthEpublish Man page
MonthEpublish,Medline-method Man page
MonthEpublish-methods Man page
MonthPmc Man page
MonthPmc,Medline-method Man page
MonthPmc-methods Man page
MonthPpublish Man page
MonthPpublish,Medline-method Man page
MonthPpublish-methods Man page
MonthPubmed Man page
MonthPubmed,Medline-method Man page
MonthPubmed-methods Man page
MonthReceived Man page
MonthReceived,Medline-method Man page
MonthReceived-methods Man page
myeloma Man page
NlmUniqueID Man page
NlmUniqueID,Medline-method Man page
NlmUniqueID-methods Man page
PMID Man page
PMID,Medline-method Man page
PMID-methods Man page
print,EUtilsSummary-method Man page
print,Medline-method Man page
print-methods Man page
PublicationStatus Man page
PublicationStatus,Medline-method Man page
PublicationStatus-methods Man page
PublicationType Man page
PublicationType,Medline-method Man page
PublicationType-methods Man page
Query Man page
QueryCount Man page
QueryCount,EUtilsSummary-method Man page
QueryId Man page
QueryId,EUtilsSummary-method Man page
Query,Medline-method Man page
Query-methods Man page
QueryTranslation Man page
QueryTranslation,EUtilsSummary-method Man page
RefSource Man page
RefSource,Medline-method Man page
RefSource-methods Man page
RegistryNumber Man page
RegistryNumber,Medline-method Man page
RegistryNumber-methods Man page
RISmed Man page
RISmed-package Man page
show,EUtilsSummary-method Man page
show,Medline-method Man page
show-methods Man page
summary,EUtilsSummary-method Man page
summary-methods Man page
Title Man page
Title,Medline-method Man page
Title-methods Man page
Volume Man page
Volume,Medline-method Man page
Volume-methods Man page
YearAccepted Man page
YearAccepted,Medline-method Man page
YearAccepted-methods Man page
YearEpublish Man page
YearEpublish,Medline-method Man page
YearEpublish-methods Man page
YearPmc Man page
YearPmc,Medline-method Man page
YearPmc-methods Man page
YearPpublish Man page
YearPpublish,Medline-method Man page
YearPpublish-methods Man page
YearPubmed Man page
YearPubmed,Medline-method Man page
YearPubmed-methods Man page
YearReceived Man page
YearReceived,Medline-method Man page
YearReceived-methods Man page

Files

RISmed
RISmed/inst
RISmed/inst/test
RISmed/inst/test/year_test.R
RISmed/NAMESPACE
RISmed/NEWS
RISmed/data
RISmed/data/myeloma.RData
RISmed/R
RISmed/R/AllGenerics.R RISmed/R/MedlineC.R RISmed/R/EUtils.R RISmed/R/Cited.R RISmed/R/EUtilsSummary.R RISmed/R/Medline.R
RISmed/MD5
RISmed/DESCRIPTION
RISmed/man
RISmed/man/myeloma.Rd RISmed/man/YearPubmed.Rd RISmed/man/summary-methods.Rd RISmed/man/DayPubmed-methods.Rd RISmed/man/RefSource.Rd RISmed/man/YearPmc-methods.Rd RISmed/man/HourPubmed-methods.Rd RISmed/man/MonthAccepted.Rd RISmed/man/HourPubmed.Rd RISmed/man/YearAccepted-methods.Rd RISmed/man/Query.Rd RISmed/man/DayPpublish.Rd RISmed/man/Country-methods.Rd RISmed/man/YearEpublish-methods.Rd RISmed/man/MonthReceived.Rd RISmed/man/Cited.Rd RISmed/man/HourReceived-methods.Rd RISmed/man/DayAccepted-methods.Rd RISmed/man/NlmUniqueID-methods.Rd RISmed/man/MonthPubmed-methods.Rd RISmed/man/ArticleId.Rd RISmed/man/DayPmc-methods.Rd RISmed/man/EUtilsSummary-class.Rd RISmed/man/HourPpublish.Rd RISmed/man/DayAccepted.Rd RISmed/man/MedlineTA-methods.Rd RISmed/man/YearPpublish.Rd RISmed/man/AbstractText.Rd RISmed/man/PublicationStatus.Rd RISmed/man/Author-methods.Rd RISmed/man/CopyrightInformation.Rd RISmed/man/Acronym.Rd RISmed/man/Title.Rd RISmed/man/Agency-methods.Rd RISmed/man/YearPpublish-methods.Rd RISmed/man/HourPmc-methods.Rd RISmed/man/Issue.Rd RISmed/man/NlmUniqueID.Rd RISmed/man/MonthPpublish-methods.Rd RISmed/man/id.Rd RISmed/man/HourPpublish-methods.Rd RISmed/man/RefSource-methods.Rd RISmed/man/PublicationStatus-methods.Rd RISmed/man/DayReceived-methods.Rd RISmed/man/MinuteEpublish.Rd RISmed/man/MonthPmc.Rd RISmed/man/DayPmc.Rd RISmed/man/MonthPmc-methods.Rd RISmed/man/Title-methods.Rd RISmed/man/MedlineTA.Rd RISmed/man/ISSN-methods.Rd RISmed/man/Volume.Rd RISmed/man/Query-methods.Rd RISmed/man/RegistryNumber.Rd RISmed/man/MonthAccepted-methods.Rd RISmed/man/Author.Rd RISmed/man/MonthPubmed.Rd RISmed/man/MinutePubmed-methods.Rd RISmed/man/MinuteReceived.Rd RISmed/man/DayEpublish-methods.Rd RISmed/man/Cited-methods.Rd RISmed/man/HourEpublish.Rd RISmed/man/CollectiveName.Rd RISmed/man/ELocationID.Rd RISmed/man/MinutePubmed.Rd RISmed/man/PublicationType-methods.Rd RISmed/man/EUtilsGet.Rd RISmed/man/show-Medline-methods.Rd RISmed/man/EUtilsSummary.Rd RISmed/man/ArticleTitle.Rd RISmed/man/MinutePpublish.Rd RISmed/man/YearReceived.Rd RISmed/man/Country.Rd RISmed/man/MinutePmc-methods.Rd RISmed/man/Mesh.Rd RISmed/man/DayReceived.Rd RISmed/man/HourAccepted-methods.Rd RISmed/man/HourAccepted.Rd RISmed/man/Mesh-methods.Rd RISmed/man/HourReceived.Rd RISmed/man/YearReceived-methods.Rd RISmed/man/MinuteAccepted-methods.Rd RISmed/man/YearEpublish.Rd RISmed/man/DayPubmed.Rd RISmed/man/MinuteAccepted.Rd RISmed/man/MinuteEpublish-methods.Rd RISmed/man/MedlinePgn.Rd RISmed/man/PMID.Rd RISmed/man/MedlinePgn-methods.Rd RISmed/man/Medline.Rd RISmed/man/MonthEpublish.Rd RISmed/man/Language-methods.Rd RISmed/man/EUtilsQuery.Rd RISmed/man/RegistryNumber-methods.Rd RISmed/man/MinutePpublish-methods.Rd RISmed/man/ISSN.Rd RISmed/man/MonthPpublish.Rd RISmed/man/Acronym-methods.Rd RISmed/man/Affiliation.Rd RISmed/man/c-methods.Rd RISmed/man/ArticleId-methods.Rd RISmed/man/Language.Rd RISmed/man/RISmed-package.Rd RISmed/man/Affiliation-methods.Rd RISmed/man/MinutePmc.Rd RISmed/man/DayPpublish-methods.Rd RISmed/man/Issue-methods.Rd RISmed/man/translation.Rd RISmed/man/GrantID-methods.Rd RISmed/man/print-method.Rd RISmed/man/count.Rd RISmed/man/YearAccepted.Rd RISmed/man/Volume-methods.Rd RISmed/man/MonthReceived-methods.Rd RISmed/man/print.Rd RISmed/man/AbstractText-methods.Rd RISmed/man/ISSNLinking.Rd RISmed/man/PMID-methods.Rd RISmed/man/ISOAbbreviation-methods.Rd RISmed/man/HourPmc.Rd RISmed/man/MonthEpublish-methods.Rd RISmed/man/MinuteReceived-methods.Rd RISmed/man/YearPmc.Rd RISmed/man/ArticleTitle-methods.Rd RISmed/man/CollectiveName-methods.Rd RISmed/man/CopyrightInformation-methods.Rd RISmed/man/HourEpublish-methods.Rd RISmed/man/GrantID.Rd RISmed/man/ISOAbbreviation.Rd RISmed/man/ISSNLinking-methods.Rd RISmed/man/DayEpublish.Rd RISmed/man/PublicationType.Rd RISmed/man/ELocationID-methods.Rd RISmed/man/YearPubmed-methods.Rd RISmed/man/show-methods.Rd RISmed/man/Agency.Rd

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