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 2026-03-14).

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

50

GitHub organisation members

175

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.

19

Repositories

1.28K

Pull Requests

9.13K

Commits

823

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
69.48K
Clones since January 1970
14.64K
Unique cloners since January 1970
SVG  /  Reset zoom Visitors: All sanger-tol repositories
139.33K
Views since January 1970
18.71K
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
3499
 treeval 1668
@muffato
1645
 blobtoolkit 416
@yumisims
769
 treeval 430
@weaglesBio
562
 treeval 543
@prototaxites
556
 metagenomeassembly 309
@priyanka-surana
448
 readmapping 150
@gq1
337
 variantcalling 240
@tkchafin
289
 readmapping 116
@BethYates
236
 genomenote 234
@alxndrdiaz
177
 blobtoolkit 177
@SandraBabirye
genomenote 156
@zb32
blobtoolkit 121
@yz533cb
variantcomposition 76
@mahesh-panchal
curationpretext 32
@ksenia-krasheninnikova
genomeassembly 52
@eeaunin
ascc 43
@sanger-tolsoft
blobtoolkit 5
@cduong11
readmapping 10
@sainsachiko
variantcalling 9
@juliaapolonio
variantcalling 11
@
variantcomposition 3
@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: 19 pipelines 115 24 unique 9130 155 104 64 69484 14644 139333 18714
sanger-tol/blobtoolkit 4 years 10 14 1031 15 7 6 3975 1098 13561 2064
sanger-tol/ensemblgenedownload 3 years 5 3 145 1 6 2 971 430 793 168
sanger-tol/ensemblrepeatdownload 3 years 3 3 153 1 6 1 1025 410 637 154
sanger-tol/genomeassembly 4 years 0 9 378 27 12 7 6151 1570 16829 2358
sanger-tol/genomenote 4 years 15 10 1045 26 6 8 4760 1220 14127 2080
sanger-tol/insdcdownload 4 years 6 7 308 1 6 3 1455 597 1936 305
sanger-tol/readmapping 4 years 10 5 405 15 5 8 5073 1210 14140 1786
sanger-tol/sequencecomposition 4 years 2 3 144 2 6 3 1138 423 1130 258
sanger-tol/treeval 4 years 13 8 2737 29 7 5 8345 1602 34164 3770
sanger-tol/variantcalling 4 years 15 9 395 11 9 9 2783 845 12038 1336
sanger-tol/curationpretext 3 years 13 8 492 13 7 5 5186 1524 8768 1577
sanger-tol/ascc 3 years 8 6 1212 6 7 3 21137 1870 14092 1616
sanger-tol/genealignment 2 years 0 1 6 0 4 0 159 140 158 49
sanger-tol/ear 2 years 4 2 157 0 4 1 938 299 1520 199
sanger-tol/metagenomeassembly 2 years 10 4 319 7 5 0 4375 739 2507 663
sanger-tol/zippypretext 11 months 0 2 48 0 4 0 325 129 578 77
sanger-tol/variantcomposition 1 year 0 4 96 1 3 2 1312 360 2060 212
sanger-tol/nfmicrofinder 7 months 1 2 58 0 0 1 259 100 250 28
sanger-tol/purging 3 months 0 1 1 0 0 0 117 78 45 14
  Name Age Releases Committers Commits Stargazers Watchers Network Forks Clones Unique cloners Repo views Unique repo visitors