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celescope

Single Cell Analysis Pipelines

https://github.com/singleron-rd/celescope

Science Score: 26.0%

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

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (6.3%) to scientific vocabulary

Keywords

bioinformatics single-cell-analysis
Last synced: 9 months ago · JSON representation

Repository

Single Cell Analysis Pipelines

Basic Info
  • Host: GitHub
  • Owner: singleron-RD
  • License: mit
  • Language: Python
  • Default Branch: master
  • Homepage: https://www.singleron.bio/
  • Size: 9.8 MB
Statistics
  • Stars: 106
  • Watchers: 2
  • Forks: 34
  • Open Issues: 31
  • Releases: 82
Topics
bioinformatics single-cell-analysis
Created almost 6 years ago · Last pushed 10 months ago
Metadata Files
Readme License

README.md

Introduction

CeleScope is a collection of bioinfomatics analysis pipelines to process single cell sequencing data generated with Singleron products. These pipelines take paired-end FASTQ files as input and generate output files which can be used for downstream data analysis as well as a summary of QC criteria.

Mirror

If you have problems connecting to github, try: https://gitee.com/singleron-rd/celescope/

Documentation

User guide

Support

Please use the issue tracker for questions and malfunctions.

About

CeleScope is currently developed by Singleron Biotechnologies.

www.singleron.bio

Owner

  • Name: Singleron-R&D
  • Login: singleron-RD
  • Kind: organization

GitHub Events

Total
  • Create event: 25
  • Release event: 22
  • Issues event: 12
  • Watch event: 17
  • Delete event: 50
  • Issue comment event: 33
  • Push event: 74
  • Pull request event: 16
  • Fork event: 3
Last Year
  • Create event: 25
  • Release event: 22
  • Issues event: 12
  • Watch event: 17
  • Delete event: 50
  • Issue comment event: 33
  • Push event: 74
  • Pull request event: 16
  • Fork event: 3

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 1,534
  • Total Committers: 13
  • Avg Commits per committer: 118.0
  • Development Distribution Score (DDS): 0.191
Past Year
  • Commits: 147
  • Committers: 5
  • Avg Commits per committer: 29.4
  • Development Distribution Score (DDS): 0.605
Top Committers
Name Email Commits
zhouyiqi z****i@s****m 1,241
zhouxinseeu z****n@s****m 96
zhouyiqi91 3****2@q****m 62
Chenjunjie1996 7****6 57
陈俊杰 c****e@S****m 16
wuqi m****3@q****m 15
aironi 8****3 12
wuqi21 6****1 11
raulee 4****l 9
zhouxinseeu 7****u 6
陈俊杰 c****e@S****m 4
pigraul r****e@o****m 3
aironi 3****5@q****m 2
Committer Domains (Top 20 + Academic)
qq.com: 3 singleronbio.com: 2 sgrnjshiny.sgr.com: 1 sgrnjlogin.sgr.com: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 70
  • Total pull requests: 97
  • Average time to close issues: 5 months
  • Average time to close pull requests: about 1 month
  • Total issue authors: 56
  • Total pull request authors: 6
  • Average comments per issue: 2.7
  • Average comments per pull request: 0.04
  • Merged pull requests: 78
  • Bot issues: 0
  • Bot pull requests: 1
Past Year
  • Issues: 7
  • Pull requests: 4
  • Average time to close issues: 12 days
  • Average time to close pull requests: 4 minutes
  • Issue authors: 7
  • Pull request authors: 1
  • Average comments per issue: 0.14
  • Average comments per pull request: 0.0
  • Merged pull requests: 3
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • univerchen (5)
  • asdChenJin (3)
  • CaiCheng1996 (3)
  • AndreaGhiroldi (2)
  • Zymaniswenzai (2)
  • m-fayer (2)
  • AcetylCoALab (2)
  • MohamedAbdalfatah (2)
  • caijingtao1993 (2)
  • calcaidecabello (2)
  • feather-W (1)
  • gangcai (1)
  • h1106351165 (1)
  • avishai987 (1)
  • fanchen26222 (1)
Pull Request Authors
  • Chenjunjie1996 (57)
  • pigraul (16)
  • lzh233 (13)
  • wuqi21 (10)
  • dependabot[bot] (2)
  • zhouyiqi91 (1)
Top Labels
Issue Labels
help wanted (1) bug (1)
Pull Request Labels
dependencies (2) python (2) documentation (1)

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 778 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 90
  • Total maintainers: 1
pypi.org: celescope

Single Cell Analysis Pipelines

  • Versions: 90
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 778 Last month
Rankings
Dependent packages count: 7.3%
Forks count: 7.7%
Stargazers count: 8.2%
Average: 11.4%
Downloads: 11.7%
Dependent repos count: 22.1%
Maintainers (1)
zhouyiqi91
Last synced: 10 months ago

Dependencies

.github/workflows/release.yml actions
  • actions/checkout v2 composite
  • actions/create-release v1 composite
  • actions/setup-python v2 composite
.github/workflows/setup.yml actions
  • actions/checkout v2 composite
  • actions/setup-python v2 composite
Dockerfile docker
  • continuumio/miniconda3 latest build
requirements.txt pypi
  • anndata ==0.7.6
  • biopython *
  • cutadapt ==3.7
  • cython *
  • editdistance >=0.5.3
  • igraph *
  • jinja2 >=2.10
  • kaleido *
  • leidenalg *
  • matplotlib ==3.5.3
  • numpy >=1.21.0
  • pandas >=1.2.5
  • plotly >=4.14.3
  • plotnine ==0.9.0
  • pyranges *
  • pysam >=0.18.0
  • pytest *
  • scanpy ==1.8.2
  • scikit-learn >=0.0
  • scipy >=1.5.0
  • statsmodels *
  • venn *
  • xlwt *
  • xopen >=0.5.0
setup.py pypi