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protaccel

Code for reproducing results from the paper "RNA velocity and protein acceleration from single-cell multiomics experiments."

https://github.com/pachterlab/gsp_2019

Science Score: 23.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 1 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: biorxiv.org, zenodo.org
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (5.1%) to scientific vocabulary

Keywords

protein
Last synced: 11 months ago · JSON representation

Repository

Code for reproducing results from the paper "RNA velocity and protein acceleration from single-cell multiomics experiments."

Basic Info
  • Host: GitHub
  • Owner: pachterlab
  • License: bsd-2-clause
  • Language: Jupyter Notebook
  • Default Branch: master
  • Homepage:
  • Size: 167 MB
Statistics
  • Stars: 11
  • Watchers: 5
  • Forks: 3
  • Open Issues: 1
  • Releases: 0
Topics
protein
Created about 7 years ago · Last pushed over 6 years ago
Metadata Files
Readme License

readme.md

Protein acceleration

This GitHub repository contains the Python code for reproducing the analysis and figures in the protein acceleration publication (https://www.biorxiv.org/content/10.1101/658401v2), as well as pre-processing directions to harmonize source .bam and .loom files. The version of the protaccel package is equivalent to to https://pypi.org/project/protaccel/0.301/ and https://zenodo.org/record/3620874. A Google Colaboratory notebook hosted at https://colab.research.google.com/drive/1UhemkpBT5YtgN9kjuzIKY7uGbl9-phwX allows the immediate reproduction of the CITE-seq processing in the cloud. Available under the BSD-2-Clause license.

Owner

  • Name: Pachter Lab
  • Login: pachterlab
  • Kind: organization
  • Email: lpachter@caltech.edu
  • Location: Pasadena, CA

GitHub Events

Total
Last Year

Committers

Last synced: almost 3 years ago

All Time
  • Total Commits: 17
  • Total Committers: 2
  • Avg Commits per committer: 8.5
  • Development Distribution Score (DDS): 0.176
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
gennadygorin 4****n 14
Lior Pachter l****r@g****m 3

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 2
  • Total pull requests: 0
  • Average time to close issues: 10 months
  • Average time to close pull requests: N/A
  • Total issue authors: 2
  • Total pull request authors: 0
  • Average comments per issue: 1.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • VolkerBergen (1)
  • 1cm-cyber (1)
Pull Request Authors
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 28 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 4
  • Total maintainers: 2
pypi.org: protaccel

Package to infer kinetics from scRNA-seq/feature barcoding data.

  • Versions: 4
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 28 Last month
Rankings
Dependent packages count: 10.0%
Stargazers count: 16.5%
Forks count: 16.8%
Dependent repos count: 21.7%
Average: 23.0%
Downloads: 49.9%
Maintainers (2)
gennadygorin tarachari3
Last synced: 11 months ago