Showing 8 of total 8 results (show query)
bioc
recount3:Explore and download data from the recount3 project
The recount3 package enables access to a large amount of uniformly processed RNA-seq data from human and mouse. You can download RangedSummarizedExperiment objects at the gene, exon or exon-exon junctions level with sample metadata and QC statistics. In addition we provide access to sample coverage BigWig files.
Maintained by Leonardo Collado-Torres. Last updated 4 months ago.
coveragedifferentialexpressiongeneexpressionrnaseqsequencingsoftwaredataimportannotation-agnosticbioconductorcountderfinderexongenehumanilluminajunctionmouserecountrecount3
33 stars 8.03 score 216 scripts
ropensci
EDIutils:An API Client for the Environmental Data Initiative Repository
A client for the Environmental Data Initiative repository REST API. The 'EDI' data repository <https://portal.edirepository.org/nis/home.jsp> is for publication and reuse of ecological data with emphasis on metadata accuracy and completeness. It is built upon the 'PASTA+' software stack <https://pastaplus-core.readthedocs.io/en/latest/index.html#> and was developed in collaboration with the US 'LTER' Network <https://lternet.edu/>. 'EDIutils' includes functions to search and access existing data, evaluate and upload new data, and assist other data management tasks common to repository users.
Maintained by Colin Smith. Last updated 1 years ago.
ecologyeml-metadataopen-accessopen-dataresearch-data-managementresearch-data-repository
10 stars 6.47 score 117 scripts
robsteranium
csvwr:Read and Write CSV on the Web (CSVW) Tables and Metadata
Provide functions for reading and writing CSVW - i.e. CSV tables and JSON metadata. The metadata helps interpret CSV by setting the types and variable names.
Maintained by Robin Gower. Last updated 1 years ago.
15 stars 4.88 score 10 scripts
leeper
csvy:Import and Export CSV Data with a YAML Metadata Header
Support for import from and export to the CSVY file format. CSVY is a file format that combines the simplicity of CSV (comma-separated values) with the metadata of other plain text and binary formats (JSON, XML, Stata, etc.) by placing a YAML header on top of a regular CSV.
Maintained by Thomas J. Leeper. Last updated 7 years ago.
59 stars 4.77 score 7 scripts
jacobimarsh
crosshap:Local Haplotype Clustering and Visualization
A local haplotyping visualization toolbox to capture major patterns of co-inheritance between clusters of linked variants, whilst connecting findings to phenotypic and demographic traits across individuals. 'crosshap' enables users to explore and understand genomic variation across a trait-associated region. For an example of successful local haplotype analysis, see Marsh et al. (2022) <doi:10.1007/s00122-022-04045-8>.
Maintained by Jacob Marsh. Last updated 5 months ago.
12 stars 4.56 score 4 scripts
traitecoevo
traits.build:A workflow for harmonising trait data from diverse sources into a documented standard structure
The `traits.build` package provides a workflow to harmonise trait data from diverse sources. The code was originally built to support AusTraits (see Falster et al 2021, <doi:10.1038/s41597-021-01006-6>, <https://github.com/traitecoevo/autraits.build>) and has been generalised here to support construction of other trait databases. For detailed instructions and examples see <https://traitecoevo.github.io/traits.build-book/>.
Maintained by Daniel Falster. Last updated 10 days ago.
10 stars 3.70 score 25 scripts
nyuglobalties
blueprintr:Automagically Document and Test Datasets Using Targets Or Drake
Documents and tests datasets in a reproducible manner so that data lineage is easier to comprehend for small to medium tabular data. Originally designed to aid data cleaning tasks for humanitarian research groups, specifically large-scale longitudinal studies.
Maintained by Patrick Anker. Last updated 9 months ago.
1 stars 3.40 score 7 scripts
kwb-r
kwb.fisbroker:R Package for Getting Spatial Data from FIS-Broker
R Package for getting spatial data from FIS-Broker (https://www.stadtentwicklung.berlin.de/geoinformation/fis-broker/).
Maintained by Michael Rustler. Last updated 3 years ago.
1 stars 3.00 score 2 scripts