Introduction

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

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 2024-12-21).

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

43

GitHub organisation members

138

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.

24

Repositories

629

Pull Requests

12.82K

Commits

534

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
SVG  /  Reset zoom Visitors: All sanger-tol repositories

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.

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.

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
1893
treeval 1397
@mashehu
1890
nf-core-website 1890
@ewels
1470
nf-core-website 1470
@muffato
1186
blobtoolkit 196
@nf-core-bot
995
nf-core-website 992
@yumisims
519
treeval 390
@priyanka-surana
469
readmapping 150
@weaglesBio
436
treeval 419
@jfy133
405
nf-core-website 405
@gq1
320
variantcalling 231
@FranBonath
252
nf-core-website 252
@BethYates
220
genomenote 218
@renbot-bio
219
nf-core-website 219
@alxndrdiaz
185
blobtoolkit 177
@christopher-hakkaart
173
nf-core-website 173
@tkchafin
149
readmapping 99
@FriederikeHanssen
147
nf-core-website 147
@apeltzer
138
nf-core-website 138
@maxulysse
135
nf-core-website 135
@zb32
121
blobtoolkit 121
@edmundmiller
100
nf-core-website 100
@ggabernet
nf-core-website 87
@mribeirodantas
nf-core-website 85
@drpatelh
nf-core-website 74
@JoseEspinosa
nf-core-website 59
@SandraBabirye
genomenote 59
@mirpedrol
nf-core-website 56
@mahesh-panchal
nf-core-website 53
@ksenia-krasheninnikova
genomeassembly 52
@bjlang
nf-core-website 47
@alneberg
nf-core-website 42
@medulka
nf-core-website 41
@renovate[bot]
nf-core-website 39
@nvnieuwk
nf-core-website 37
@LouisLeNezet
nf-core-website 35
@lescai
nf-core-website 30
@chriswyatt1
nf-core-website 30
@elinkronander
nf-core-website 28
@alvaromartmart
nf-core-website 22
@sven1103
nf-core-website 21
@joaquimgamero
nf-core-website 21
@KevinMenden
nf-core-website 18
@llewellyn-sl
nf-core-website 16
@sateeshperi
nf-core-website 16
@sofiahag
nf-core-website 15
@CarsonJM
nf-core-website 14
@abhi18av
nf-core-website 14
@eeaunin
ascc 13
@BatoolMM
nf-core-website 13
@cmatKhan
nf-core-website 13
@chlazaris
nf-core-website 13
@reichan1998
readmapping 10
@evanfloden
nf-core-website 12
@dependabot[bot]
nf-core-website 11
@EmelineFavreau
nf-core-website 11
@jonasscheid
nf-core-website 10
@rivera10
nf-core-website 10
@Joon-Klaps
nf-core-website 9
@SPPearce
nf-core-website 9
@zhan4429
nf-core-website 8
@aanil
nf-core-website 8
@erikrikarddaniel
nf-core-website 8
@jcurado-flomics
nf-core-website 8
@heylf
nf-core-website 7
@ziadbkh
nf-core-website 7
@kubranarci
nf-core-website 7
@github-actions[bot]
nf-core-website 7
@matq007
nf-core-website 7
@itrujnara
nf-core-website 6
@nictru
nf-core-website 6
@olgabot
nf-core-website 6
@AlexVCaron
nf-core-website 6
@Snorkan
nf-core-website 6
@grst
nf-core-website 6
@nickhsmith
nf-core-website 6
@atrigila
nf-core-website 5
@Krannich479
nf-core-website 5
@AnnaSyme
nf-core-website 5
@matthdsm
nf-core-website 5
@lassefolkersen
nf-core-website 5
@MatthiasZepper
nf-core-website 5
@scheckley
nf-core-website 5
@alihkz94
nf-core-website 4
@paulineauffret
nf-core-website 4
@phue
nf-core-website 4
@pinin4fjords
nf-core-website 4
@daisymut
nf-core-website 4
@drewjbeh
nf-core-website 4
@PhilPalmer
nf-core-website 4
@telatin
nf-core-website 4
@MinosBiosciences
nf-core-website 4
@grantn5
nf-core-website 4
@Midnighter
nf-core-website 3
@sanger-tolsoft
variantcalling 2
@piotr-faba-ardigen
nf-core-website 3
@bbartholdy
nf-core-website 3
@benbfly
nf-core-website 3
@adamrtalbot
nf-core-website 3
@georgiesamaha
nf-core-website 3
@jasmezz
nf-core-website 3
@MizouziE
nf-core-website 3
@jonoave
nf-core-website 3
@ErikDanielsson
nf-core-website 3
@rplanel
nf-core-website 3
@pontus
nf-core-website 3
@makrez
nf-core-website 3
@bozmik
nf-core-website 3
@snafees
nf-core-website 3
@TCLamnidis
nf-core-website 3
@arnaudbore
nf-core-website 3
@ignaciot
nf-core-website 3
@fmalmeida
nf-core-website 3
@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".

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: 15 pipelines 50 114 unique 12817 112 118 235 19100 4124 78730 8840
sanger-tol/blobtoolkit 3 years 5 7 626 11 7 4 1589 317 6492 859
sanger-tol/ensemblgenedownload 2 years 5 3 145 1 6 2 468 161 573 123
sanger-tol/ensemblrepeatdownload 2 years 3 3 153 1 6 1 439 146 509 96
sanger-tol/genomeassembly 2 years 0 7 144 20 12 3 1985 345 11852 1197
sanger-tol/genomenote 3 years 10 7 590 24 8 6 2472 514 9278 1230
sanger-tol/insdcdownload 2 years 5 4 216 1 7 2 752 238 1479 182
sanger-tol/readmapping 3 years 7 5 376 11 6 6 1089 251 7949 859
sanger-tol/sequencecomposition 2 years 2 3 145 2 6 1 496 150 517 106
sanger-tol/treeval 2 years 3 6 2277 23 7 5 4324 690 24445 2491
sanger-tol/variantcalling 3 years 6 6 289 4 10 3 1123 287 4165 497
sanger-tol/curationpretext 1 year 2 5 178 6 8 4 1665 448 3671 514
sanger-tol/ascc 1 year 0 4 414 4 8 0 2217 401 7124 548
sanger-tol/longreadmag 9 months 0 1 2 1 5 0 272 82 150 43
sanger-tol/genealignment 6 months 0 1 1 0 4 0 57 46 95 28
sanger-tol/ear 5 months 2 1 53 0 5 0 151 47 430 66
sanger-tol/bioscan_anospp_metadata 3 years 0 0 0 1 0
sanger-tol/bioscan_sciops 1 year 0 0 0 1 0
sanger-tol/bioscan_bold 7 months 0 0 0 1 0
sanger-tol/ancharch 6 months 0 0 0 1 0
sanger-tol/MicroFinder 3 months 0 0 3 3 2
sanger-tol/Pretext-curation-tools 2 months 0 0 0 2 0
sanger-tol/rapid-curation 2 months 0 0 0 2 1
sanger-tol/nf-core-website 2 months 0 100 7208 0 0 195 1 1 1 1
sanger-tol/badass-ops 2 days 0 0 0 2 0
  Name Age Releases Committers Commits Stargazers Watchers Network Forks Clones Unique cloners Repo views Unique repo visitors