Topic: human-cell-atlas Goto Github
Some thing interesting about human-cell-atlas
Some thing interesting about human-cell-atlas
human-cell-atlas,Browse the Human Cell Atlas data portal
Organization: bioconductor
human-cell-atlas,:warning: DEPRECATED :warning: Download Matrix Data using the HCA API
Organization: bioconductor
Home Page: https://bioconductor.org/packages/HCAMatrixBrowser
human-cell-atlas,Tutorials, workflows, and convenience scripts for Single Cell Portal
Organization: broadinstitute
Home Page: https://singlecell.broadinstitute.org/single_cell
human-cell-atlas,Rails/Docker application for the Broad Institute's single cell RNA-seq data portal
Organization: broadinstitute
Home Page: https://singlecell.broadinstitute.org
human-cell-atlas,Ontology visualizer
Organization: chanzuckerberg
human-cell-atlas,Comparative Pathology Workbench
Organization: comparative-pathology
human-cell-atlas,K-means clustering for large single-cell datasets
User: drisso
human-cell-atlas,Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCellExperiment.html for the official development version.
User: drisso
human-cell-atlas,Access data from the Human Cell Atlas project, directly via R/Bioconductor
User: federicomarini
Home Page: https://preview.data.humancellatlas.org
human-cell-atlas,Bayesian MCMC matrix factorization algorithm
Organization: fertiglab
Home Page: https://www.bioconductor.org/packages/release/bioc/html/CoGAPS.html
human-cell-atlas,Discrete Distributional Differential Expression
Organization: hemberg-lab
human-cell-atlas,A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments
Organization: hemberg-lab
Home Page: http://bioconductor.org/packages/SC3
human-cell-atlas,A tool for unsupervised projection of single cell RNA-seq data
Organization: hemberg-lab
Home Page: http://bioconductor.org/packages/scmap
human-cell-atlas,R/shiny interface for interactive visualization of data in SummarizedExperiment objects
Organization: isee
Home Page: https://isee.github.io/iSEE/
human-cell-atlas,Examples of custom panels for the iSEE package
Organization: isee
Home Page: https://github.com/csoneson/iSEE
human-cell-atlas,Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
User: jenni-westoby
human-cell-atlas,This is the pipeline to perform a Drop-seq simulation based benchmark - see https://www.biorxiv.org/content/early/2018/01/17/248716
User: jenni-westoby
human-cell-atlas,Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
User: jenni-westoby
human-cell-atlas,Clone of the Bioconductor repository for the BiocNeighbors package.
Organization: knncolle
Home Page: https://bioconductor.org/packages/devel/bioc/html/BiocNeighbors.html
human-cell-atlas,N-dimensional arrays, with Zarr and HDF5 integrations
Organization: lasersonlab
human-cell-atlas,Index and search single cell data.
Organization: lasersonlab
human-cell-atlas,Experiments to run single cell analyses efficiently at scale using Zarr, anndata, Scanpy, and Apache Spark
Organization: lasersonlab
human-cell-atlas,Distributed processing with NumPy and Zarr
Organization: lasersonlab
human-cell-atlas,Clone of the Bioconductor repository for the batchelor package.
User: ltla
Home Page: https://bioconductor.org/packages/devel/bioc/html/batchelor.html
human-cell-atlas,Clone of the Bioconductor repository for the BiocSingular package.
User: ltla
Home Page: https://bioconductor.org/packages/devel/bioc/html/BiocSingular.html
human-cell-atlas,This contains the dataset for comparing scRNA-seq analysis methods
User: luyitian
human-cell-atlas, Clone of the Bioconductor repository for the DropletUtils package.
Organization: marionilab
Home Page: https://bioconductor.org/packages/devel/bioc/html/DropletUtils.html
human-cell-atlas,Code for the empty droplet and cell detection project from the HCA Hackathon.
Organization: marionilab
human-cell-atlas,Clone of the Bioconductor repository for the scran package.
Organization: marionilab
Home Page: https://bioconductor.org/packages/devel/bioc/html/scran.html
human-cell-atlas,This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.
Organization: morris-lab
human-cell-atlas,This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.
Organization: morris-lab
human-cell-atlas,Repository of the CellTag Viz Shiny App
Organization: morris-lab
human-cell-atlas,This repository contains our CellTag CloneHunter R package for clone-calling.
Organization: morris-lab
human-cell-atlas,An R package that visualizes Human Cell Atlas annotations on an SVG cell image.
User: nelnour
human-cell-atlas,CITE-seq profiling of human PBMCs at baseline and activation conditions
User: nlawlor
Home Page: https://thejacksonlaboratory.shinyapps.io/czi-pbmc-cite-seq
human-cell-atlas,A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batches
Organization: quon-titative-biology
human-cell-atlas,Binary Factor Analysis: a dimensionality reduction tool for noisy, high throughput single cell genomic data
Organization: quon-titative-biology
human-cell-atlas,R toolkit for single cell genomics
Organization: satijalab
Home Page: http://www.satijalab.org/seurat
human-cell-atlas,Docker images of Seurat
Organization: satijalab
Home Page: https://hub.docker.com/r/satijalab/seurat
human-cell-atlas,Deep probabilistic analysis of single-cell and spatial omics data
Organization: scverse
Home Page: http://scvi-tools.org/
human-cell-atlas,Access and Format Single-cell RNA-seq Datasets from Public Resources
User: showteeth
Home Page: https://showteeth.github.io/scfetch/
human-cell-atlas,Convert supported filesets to the SpaceTx format
Organization: spacetx
Home Page: https://spacetx-starfish.readthedocs.io/en/stable/sptx-format/
human-cell-atlas,starfish: unified pipelines for image-based transcriptomics
Organization: spacetx
Home Page: https://spacetx-starfish.readthedocs.io/en/latest/
human-cell-atlas,Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
User: stemangiola
Home Page: https://stemangiola.github.io/CuratedAtlasQueryR/
human-cell-atlas,
User: tallulandrews
human-cell-atlas,Clone of the Bioconductor repository for the beachmat package.
Organization: tatami-inc
Home Page: http://bioconductor.org/packages/devel/bioc/html/beachmat.html
human-cell-atlas,Aligning gene expression trajectories of single-cell reference and query systems
Organization: teichlab
Home Page: https://teichlab.github.io/Genes2Genes/
human-cell-atlas,The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell level. CPA performs OOD predictions of unseen combinations of drugs, learns interpretable embeddings, estimates dose-response curves, and provides uncertainty estimates.
Organization: theislab
human-cell-atlas,Reference mapping for single-cell genomics
Organization: theislab
Home Page: https://docs.scarches.org/en/latest/
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