clustree - Visualise Clusterings at Different Resolutions
Deciding what resolution to use can be a difficult question when approaching a clustering analysis. One way to approach this problem is to look at how samples move as the number of clusters increases. This package allows you to produce clustering trees, a visualisation for interrogating clusterings as resolution increases.
Last updated 1 years ago
clusteringclustering-treesvisualisationvisualization
11.11 score 219 stars 3 dependents 1.9k scripts 2.8k downloadszellkonverter - Conversion Between scRNA-seq Objects
Provides methods to convert between Python AnnData objects and SingleCellExperiment objects. These are primarily intended for use by downstream Bioconductor packages that wrap Python methods for single-cell data analysis. It also includes functions to read and write H5AD files used for saving AnnData objects to disk.
Last updated 3 months ago
singlecelldataimportdatarepresentationbioconductorconversionscrna-seq
11.07 score 157 stars 4 dependents 632 scripts 2.4k downloadszellkonverter - Conversion Between scRNA-seq Objects
Provides methods to convert between Python AnnData objects and SingleCellExperiment objects. These are primarily intended for use by downstream Bioconductor packages that wrap Python methods for single-cell data analysis. It also includes functions to read and write H5AD files used for saving AnnData objects to disk.
Last updated 2 months ago
singlecelldataimportdatarepresentationbioconductorconversionscrna-seq
10.75 score 157 stars 4 dependents 608 scriptssplatter - Simple Simulation of Single-cell RNA Sequencing Data
Splatter is a package for the simulation of single-cell RNA sequencing count data. It provides a simple interface for creating complex simulations that are reproducible and well-documented. Parameters can be estimated from real data and functions are provided for comparing real and simulated datasets.
Last updated 3 months ago
singlecellrnaseqtranscriptomicsgeneexpressionsequencingsoftwareimmunooncologybioconductorbioinformaticsscrna-seqsimulation
9.92 score 222 stars 1 dependents 424 scripts 801 downloadssplatter - Simple Simulation of Single-cell RNA Sequencing Data
Splatter is a package for the simulation of single-cell RNA sequencing count data. It provides a simple interface for creating complex simulations that are reproducible and well-documented. Parameters can be estimated from real data and functions are provided for comparing real and simulated datasets.
Last updated 2 months ago
singlecellrnaseqtranscriptomicsgeneexpressionsequencingsoftwareimmunooncologybioconductorbioinformaticsscrna-seqsimulation
9.19 score 223 stars 1 dependents 416 scriptsanndataR - AnnData interoperability in R
Bring the power and flexibility of AnnData to the R ecosystem, allowing you to effortlessly manipulate and analyze your single-cell data. This package lets you work with backed h5ad and zarr files, directly access various slots (e.g. X, obs, var), or convert the data into SingleCellExperiment and Seurat objects.
Last updated 5 days ago
singlecelldataimportdatarepresentationanndatah5ad
7.78 score 68 stars 31 scriptsdoilinker - Link Preprints And Publications By DOI
Links preprints to publications using the method described in Cabanac G, Oikonomidi T, Boutron I. "Day-to-day discovery of preprint-publication links". Scientometrics. 2021;1–20. DOI: 10.1007/s11192-021-03900-7.
Last updated 12 months ago
doipreprintpublication
3.40 score 5 stars 3 scriptsclamour - Website for Twitter analysis results
clamour provides a template for setting up a website to display the results of analysis of Twitter hashtags.
Last updated 4 years ago
analysistwitter
3.40 score 5 stars 2 scripts