Package: BioImageDbs 1.21.0

Satoshi Kume

BioImageDbs: Bio- and biomedical imaging dataset for machine learning and deep learning (for ExperimentHub)

The package provides a bioimage dataset for the image analysis using machine learning and deep learning. The dataset includes microscopy imaging data with supervised labels. The data is provided as R list data that can be loaded to Keras/tensorflow in R.

Authors:Satoshi Kume [aut, cre], Kozo Nishida [aut]

BioImageDbs_1.21.0.tar.gz
BioImageDbs_1.21.0.tar.gz(r-4.7-any)BioImageDbs_1.21.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
BioImageDbs/json (API)

# Install 'BioImageDbs' in R:
install.packages('BioImageDbs', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/kumes/bioimagedbs/issues

On BioConductor:BioImageDbs-1.21.0(data/experiment 3.24)BioImageDbs-1.20.0(data/experiment 3.23)

experimenthubexperimentdatacellculturetissuebioconductorbioimagebioimage-informaticsdatapkg

4.60 score 2 stars 5 scripts 0 exports 93 dependencies

Last updated from:5064ecaa87. Checks:1 ERROR, 3 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksERROR202
linux-develOK284
source / vignettesOK422
linux-releaseOK249

Exports:

Dependencies:abindanimationAnnotationDbiAnnotationHubaskpassbackportsbase64encBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64bitopsblobbslibcachemcheckmateclicommonmarkcpp11crayoncurlDBIdbplyrdigestdplyrEBImageeinsumevaluateExperimentHubfastmapfftwtoolsfilelockfilesstringsfontawesomefsgenericsgluehighrhtmltoolshtmlwidgetshttrhttr2IRangesjpegjquerylibjsonliteKEGGRESTknitrlatticelifecyclelitedownlocfitmagickmagrittrmarkdownmathjaxrmemoisemimeopensslpillarpkgconfigpngpurrrR6rappdirsRcppRCurlrlangrmarkdownRSQLiteS4VectorssassSeqinfostrexstringistringrsystibbletidyrtidyselecttifftinytexutf8vctrswithrxfunXVectoryaml

Providing Bioimage Dataset for ExperimentHub
Utilisation and prospects of bioimage datasets | Fetch Bioimage Datasets from ExperimentHub | 5D Arrays from the ExperimentHub | 4D Arrays from the ExperimentHub | Visualization of gif images from the ExperimentHub | A simple execution command using Keras/Tensorflow | About the imaging dataset and its metadata in BioImageDbs | Session information | References
Rendered fromBioImageDbs.Rmdusingknitr::rmarkdown

Last update: 2021-11-11
Started: 2021-04-22

The BioImageBbs Datasets
Fetch Bioimage Datasets from ExperimentHub | ExperimentHub package | Simaple query | About datasets | EM_id0001: Mouse brain neurons (5D Array / Tensor) | EM_id0002: Drosophila brain neurons (5D Array / Tensor) | EM_id0003: J558L cells (4D Array / Tensor) | EM_id0004: primary human T cells (4D Array / Tensor) | EM_id0005: Mouse Kidney 2D imaging (4D Array / Tensor) | EM_id0006: Rat Liver 2D imaging (4D Array / Tensor) | EM_id0007: Mouse Kidney MultiScale images (4D Array / Tensor) | EM_id0008: Human NB4 cells (4D Array / Tensor) | EM_id0009: Murine BMMC cells (4D Array / Tensor) | EM_id0010: Human Blast cells (4D Array / Tensor) | EM_id0011: human T-cell line Jurkat cells (4D Array / Tensor) | LM_id0001: HeLa cells (4D Array / Tensor) | LM_id0002: Human glioblastoma-astrocytoma U373 cells (4D Array / Tensor) | LM_id0003: GFP-GOWT1 mouse stem cells (4D Array / Tensor) | Session information
Rendered fromBioImageBbs_Datasets.Rmdusingknitr::rmarkdown

Last update: 2021-11-11
Started: 2021-11-11