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Single-cell RNA-seq data visualization

Project description

SCelVis: Easy Single-Cell Visualization

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Documentation

The SCelVis documentation at ReadTheDocs.org contains comprehensive information including a Tutorial.

Movie

docs_manual/figures/scelvis_movie.gif

Installation

You can install with Pip and Bioconda or run directly via Docker.

$ pip install scelvis
# OR
$ conda install scelvis
# OR
$ docker run quay.io/biocontainers/scelvis:0.7.3--py_0 scelvis --help

Look up the latest version (instead of 0.7.3 to use at here)

History

v0.8.1

  • fixing iframe sources (important if running behind reverse proxy with HTTPS)
  • link documentation on home screen

v0.8.0

  • adding sphinx documentation for ReadTheDocs
  • upload and convert with IFrames; increase size limit
  • add box plots

v0.7.3

  • fix cache timeout error

v0.7.2

  • fix ReferenceError
  • updated README and tutorialmovie

v0.7.1

  • improved cache handling
  • improved user feedback for filtering & differential expression

v0.7.0

  • added conversion from .loom files
  • cell filtering also supports downsampling
  • added PBMC dataset hosted on figshare
  • added demo movie

v0.6.0

  • cell filtering
  • differential expression

v0.5.0

  • upgrades to Dash v1
  • fixes to UI, upload and conversion
  • avoid creation of dense matrices

v0.4.1

  • Fixing bug with specifying single .h5ad file as data source.
  • Adding Dockerfile for building Docker images from intermediate versions.

v0.4.0

  • Adding support for HTTP(S) data sources.
  • Embedding about.md information in Anndata file.
  • Adding support for passing

v0.3.0

  • Adding example data set.
  • Adding nice introduction to start page.
  • Adding functionality for creating simple fake data set.
  • Making import of ruamel_yaml more robust still.
  • Adding tests.
  • Adding Travis CI–based continuous integration tests.

v0.2.1

  • Fixing SFTP support.
  • Fixing import of ruamel_yaml.

v0.2.0

  • More refactorization.
  • Fixing dependency on ruamel-yaml to ruamel.yaml.
  • Adding conversion feature.
  • Adding upload feature.
  • Adding support to load from SSHFS, FTP through pyfilesystem (no FTPS support).
  • Adding support to load from iRODS, also works via tickets (pass ?ticket=TICKET to the query parameters).

v0.1.0

Initial release.

  • Everything is new!

Project details


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