prideCount: The number of entries returned by searching

In paodan/prideDownloader:

Description

The number of entries returned by searching

Usage

prideCount(query = "*", speciesFilter = NULL, ptmsFilter = NULL,
  tissueFilter = NULL, diseaseFilter = NULL, titleFilter = NULL,
  instrumentFilter = NULL, experimentTypeFilter = NULL,
  quantificationFilter = NULL, projectTagFilter = NULL)

Arguments

query	character, the keywords to search. For example: "stress".
speciesFilter	numeric, filter by species. The NCBI taxon ID (https://www.ensembl.org/info/about/species.html). For example, 9606 represents Homo sapiens (human), 10116 represents Rattus norvegicus (rat), 9986 represents Oryctolagus cuniculus (rabbit), 10090 is Mus musculus (mouse), and 7955 is Danio rerio (Zebrafish).
ptmsFilter	character, filter by PTM (Post-translational modification) annotation. For example: "phosphorylation".
tissueFilter	character, filter by tissue annotation. For example: "HEK-293 cell", "breast", "cell culture", "brain".
diseaseFilter	character, the disease to filter. For example: "disease free", "cancer".
titleFilter	character, filter the title for keywords (example: stress).
instrumentFilter	character, the instrument to filter. For example: "LTQ Orbitrap", "LTQ", "LTQ FT", "LTQ Orbitrap Velos".
experimentTypeFilter	character, filter by experiment type. For example: "Bottom-up proteomics", "Affinity purification coupled with mass spectrometry proteomics", "Shotgun proteomics", "shotgun".
quantificationFilter	character, the quantification to filter. For example: "Spectrum count/molecular weight", "Spectrum counting", "label-free".
projectTagFilter	character, filter by project tags (example: Biomedical).

Value

the number of entries

Examples

{
## Not run: 
# search "breast" on Homo sapiens (9606)
prideCount(query = "breast", speciesFilter = 9606)

## End(Not run)
}

paodan/prideDownloader documentation built on May 6, 2019, 11:44 a.m.