Introduction

On this page you can see the beating heart of sanger-tol - the size of our community and the output of our work.

Click to expand: How these numbers are collected and what caveats should be considered

Please bear in mind the following points when looking over these numbers:

  • Pipelines maybe worked on before they are transferred to sanger-tol. The age, stars and other metrics of the original parent repository are not shown.
  • Metrics are for the default (main) branch only
  • Commits and contributors are only counted if associated with a GitHub account
  • nextflow pull and nextflow run uses git to clone a remote repo the first time it runs, so the clones count gives some idea of usage. However:
    • Unique cloners is based on IP address, so will under-represent institutional users sharing a single external IP address
    • Unique cloners is based on IP address, so will over-represent cloud users using multiple IP addresses
    • Traditional HPC centres may share workflow installations, so only have one clone for many users  /  pipeline runs
    • Cloud users will typically spin up a new instance and clone the workflow every time that they run a pipeline.
  • Clone counts and repositoriy views are only available for two weeks - longer term data collection for sanger-tol repos started in July 2023 This is when we started counting the totals.
  • Metrics are fetched once per day (last checked 2024-07-27).

Community

The numbers below track our growth over the various channels that the sanger-tol community operates in.

Click a number to see how the community has grown over time

29

GitHub organisation members

37

GitHub contributors

GitHub organisation members

We use GitHub to manage all of the code written for sanger-tol. It's a fantastic platform and provides a huge number of tools. We have a GitHub organisation called sanger-tol.

It is not required to be a member of the sanger-tol GitHub organisation to contribute. However, members get the sanger-tol logo listed on their profile page and full write-access to all sanger-tol repositories.

By default, organisation membership is private. This is why you'll see a lower number if you visit the sanger-tol organisation page and are not a member.

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GitHub contributors

Anybody can fork sanger-tol repositories and open a pull-request. Here we count how many different people have contributed at least one commit to an sanger-tol repository, or created or commented on an issue or pull-request.

Plot truncated to start of 2022 (some pipelines moved to sanger-tol so have older contributions).

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Code stats

Whilst we always prefer quality over quantity, these numbers reflect the work output from the sanger-tol community.

16

Repositories

475

Pull Requests

4.74K

Commits

465

Issues

Repository traffic

Every time a nextflow user pulls a sanger-tol pipeline, the repository is cloned. Here we can track how much that happens across all sanger-tol repositories. Please note that these numbers come with some caveats [ see more ].

Additionally, GitHub tracks how many times people view repository web pages on github.com.

SVG  /  Reset zoom Git clones: All sanger-tol repositories
14.79K
Clones since January 1970
3.05K
Unique cloners since January 1970
SVG  /  Reset zoom Visitors: All sanger-tol repositories
64.4K
Views since January 1970
6.96K
Unique visitors since January 1970

Pull Requests

When people contribute code to a sanger-tol repository, we conduct a "Pull request" - other members of the sanger-tol community review the proposed code and make suggestions, before merging into the main repository.

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Pull Request response times

Pull-requests are reviewed by the sanger-tol community - they can contain discussion on the code and can be merged and closed. We aim to be prompt with reviews and merging. Note that some PRs can be a simple type and so very fast to merge, others can be major pipeline updates.

First response is when a comment is made by a GitHub user other than the original PR author

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Issues

GitHub issues can be created to log feature requests, bug reports or questions.

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Issue response times

A sign of an active community is a quick response time to issues. Here we see a frequency histogram of how long it takes to respond to and close issues.

First response is when a comment is made by a GitHub user other than the original issue author

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Contributor Leaderboard

We value each and every contribution to sanger-tol, no matter how small. However, that doesn't mean that we can not get competitive!

Here are the latest stats of who has contributed the greatest number of commits.

Remember
  • There is more to contributing than commits! We're not counting issue comments, reviews or anything else here.
  • People merging pull-requests get bonus commit counts from those merge commits.
  • Some people commit often, others not so much. So it's not a perfect representation of amount of work - just a bit of fun!
  • main branch only, and all of the other caveats..
@DLBPointon
1672
 treeval 1369
@muffato
993
 insdcdownload 187
@yumisims
514
 treeval 390
@priyanka-surana
448
 readmapping 150
@weaglesBio
436
 treeval 419
@gq1
308
 variantcalling 230
@alxndrdiaz
177
 blobtoolkit 177
@zb32
121
 blobtoolkit 121
@ksenia-krasheninnikova
genomeassembly 47
@eeaunin
ascc 10
@sanger-tolsoft
variantcalling 2
@nf-core-bot
variantcalling 2
@sujaikumar
blobtoolkit 2
@scorreard
curationpretext 1

Pipeline numbers

All sanger-tol pipelines are only considered stable when they have at least one release. Until then, they are classed as "in development".

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Pipelines

Click a row to see detailed statistics for that repository.

  Name Age Releases Committers Commits Stargazers Watchers Network Forks Clones Unique cloners Repo views Unique repo visitors
  Total: 14 pipelines 30 14 unique 4735 85 107 21 14785 3049 64397 6961
sanger-tol/blobtoolkit 2 years 2 6 557 10 7 0 1154 249 5033 619
sanger-tol/ensemblgenedownload 2 years 3 2 137 1 7 1 335 101 450 97
sanger-tol/ensemblrepeatdownload 2 years 2 2 146 1 6 0 322 96 395 85
sanger-tol/genomeassembly 2 years 0 7 125 13 11 2 1870 299 10560 977
sanger-tol/genomenote 2 years 5 3 276 19 8 5 1543 354 6736 943
sanger-tol/insdcdownload 2 years 3 3 208 1 7 1 610 173 1255 153
sanger-tol/readmapping 2 years 5 3 241 8 7 6 725 195 5263 613
sanger-tol/sequencecomposition 2 years 1 1 78 2 7 0 318 92 381 83
sanger-tol/treeval 2 years 3 6 2249 20 7 2 3768 579 21639 2143
sanger-tol/variantcalling 2 years 5 5 272 3 11 2 1008 249 3667 420
sanger-tol/curationpretext 1 year 1 4 148 3 8 2 1296 333 2466 356
sanger-tol/ascc 1 year 0 4 295 3 8 0 1793 294 6403 441
sanger-tol/longreadmag 4 months 0 1 2 1 5 0 25 23 77 13
sanger-tol/genealignment 1 month 0 1 1 0 4 0 18 12 72 18
sanger-tol/zippypretext 3 weeks 0 0 0 2 0
sanger-tol/ear 2 days 0 0 0 2 0
  Name Age Releases Committers Commits Stargazers Watchers Network Forks Clones Unique cloners Repo views Unique repo visitors