sanger/sequencescape

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Web based LIMS

Stars: 111
Forks: 34
Open beginner issues: 0
Indexed issues: 130
Avg merge: 4d 1h
Merged PRs (30d): 29

Dominant language: Ruby
License: MIT
Last GitHub push: Sep 18, 2026
Latest indexed: Sep 19, 2026
Contributing guide: Contributing guide
Code of conduct: No code of conduct
Beginner labels: good first issue

Beginner friendly Everything

Open All

130 open issues indexed

Y26-267 - Do not broadcast 'externally managed' samples to mlwarehouse Open

Enhancement Sapio Phase 1 Size: S

Difficulty 4/5 3-5 days Newbie friendliness 62/100

sanger/sequencescape#6059 · Opened Sep 18, 2026
Y26-264 - Register Solaris 2.0 P1 tag group for use in Ultima PCR Free pipelines Open

Enhancement good first issue Size: S Ultima

Difficulty 3/5 1-2 days Newbie friendliness 65/100

sanger/sequencescape#6050 · 1 reaction · Opened Sep 14, 2026
Y26-260 - [DRAFT] Receive work orders / submissions from Sapio Open

Enhancement Sapio Phase 1

Difficulty 4/5 3-5 days Newbie friendliness 30/100

sanger/sequencescape#6041 · Opened Sep 8, 2026
Y26-258 - As an SSR (Rich C) I would like a new flow cell kit types to be added to the SequenceScape submission forms. Open

Enhancement good first issue Size: S

sanger/sequencescape#6038 · 1 assignee · Opened Sep 7, 2026
Y26-254 - As a Project Mgr (Cat S), I would like the fields in manifests categorised into master, operational, metadata, and unknown categories so that sample and work order creation in Sapio can be configured correctly. Open

Research Sapio Phase 1 Size: M

sanger/sequencescape#6021 · 2 comments · 1 assignee · Opened Aug 27, 2026
Y26-249 - As a Team Lead (Tom W), I would like to walk stakeholders through using our existing Hi-C Limber pipelines to do Ultima PCR lab prep so that we can capture any blockers and required changes. Open

Research Size: M Ultima

sanger/sequencescape#6006 · 1 assignee · Opened Aug 20, 2026
Y26-248 - What operational data does Sequencescape need for each type of submission/request? Open

Research Sapio Phase 1 Size: M

sanger/sequencescape#6003 · 2 comments · 1 assignee · Opened Aug 19, 2026
Y26-247 - Map (Sapio) service catalogue to (Sequencescape) submissions / requests Open

Research Sapio Phase 1 Size: M

sanger/sequencescape#6002 · 8 comments · 1 assignee · Opened Aug 19, 2026
Y26-246 - Receive labware/samples from Sapio Open

Enhancement Sapio Phase 1 Size: M

Difficulty 5/5 Over a week Newbie friendliness 38/100

sanger/sequencescape#6000 · 1 comment · Opened Aug 19, 2026
Y26-244 - Ultima Library Conversion - Ultima Sample sheet changes Open

Enhancement High throughput Low throughput Size: M Ultima Library Conversion

Difficulty 4/5 3-5 days Newbie friendliness 48/100

sanger/sequencescape#5998 · 1 comment · Opened Aug 18, 2026
Y26-236 - Ultima Library Conversion - Sequencescape functionality to write ‘application_type’, ‘primer_1’, 'primer_2', ‘converted_illumina_tag’ and ‘converted_illumina_tag2’ to useq_wafer table Open

Enhancement High throughput Low throughput Size: M Ultima Library Conversion

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5993 · 1 comment · Opened Aug 17, 2026
Y26-231 - Ultima Library Conversion - bulk submissions Open

Enhancement High throughput Low throughput Size: M Ultima Library Conversion

sanger/sequencescape#5984 · 1 assignee · Opened Aug 13, 2026
Y26-225 - Enforce Unique Constraint on UUID External ID Open

Enhancement Size: S

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5968 · Opened Aug 6, 2026
Y26-215 - Improve performance for SpecificTubeCreation Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5929 · Opened Jul 16, 2026
Y26-211 - Research story on Sapio Work Orders + Samples Open

Research Sapio Phase 1 Size: M

sanger/sequencescape#5911 · 7 comments · 2 assignees · Opened Jul 9, 2026
Y26-205 - Add functionality to remove accession numbers from samples in a study Open

Accessioning Enhancement Size: S

Difficulty 4/5 3-5 days Newbie friendliness 56/100

sanger/sequencescape#5891 · 1 comment · 1 reaction · Opened Jun 29, 2026
Y26-193 - Under-represented wells performance Open

Difficulty 4/5 3-5 days Newbie friendliness 52/100

sanger/sequencescape#5853 · Opened Jun 12, 2026
Y26-176 - Address potential serialisation issues with submission templates Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5828 · Opened May 29, 2026
Y26-164 - Provide clearer error messages for automated submission failures in Limber Open

Size: S ticket: generated

Difficulty 4/5 3-5 days Newbie friendliness 55/100

sanger/sequencescape#5803 · Opened May 21, 2026
Y26-161 - As a Team Leader (Tom W) I want SequenceScape instances in all environments to be based off noble-psd-rapid7-crowdstrike, so that the application benefits from the new security enhancements. Open

Enhancement Needs Refinement Sapio Phase 1 Security

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5801 · Opened May 20, 2026
Y26-155 - [BUG] Fix or delete Tube in_state scope Open

Bug

Difficulty 3/5 1-2 days Newbie friendliness 55/100

sanger/sequencescape#5782 · Opened May 14, 2026
Y26-147-1 - New plate manifest type for Kinnex compound samples Open

Enhancement On Hold Size: M

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5771 · 1 comment · Opened May 12, 2026
Y26-152 - Add Purpose names to the Sequencescape Relations table on labware page Open

Enhancement Size: S

Difficulty 3/5 1-2 days Newbie friendliness 55/100

sanger/sequencescape#5764 · Opened May 8, 2026
Y26-148 - Enable compound sample creation upon sample manifest upload (for kinnex compound sample manifest) Open

Enhancement Size: M

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5757 · 1 comment · Opened May 5, 2026
Y26-147-2 - New tube manifest type for Kinnex compound samples Open

Enhancement On Hold Size: M

Difficulty 4/5 3-5 days Newbie friendliness 48/100

sanger/sequencescape#5756 · 1 comment · Opened May 5, 2026
Y26-136 - [BUG] submissions#show (ActionView::Template::Error) "undefined method 'template_name' for nil" Open

Bug Tech roadmap 3 Unhandled Errors

Difficulty 4/5 3-5 days Newbie friendliness 52/100

sanger/sequencescape#5716 · Opened Apr 21, 2026
Y26-135 - [Psd-exceptions] [Limber TRAINING] sequencescape_submissions#create Open

Bug

Difficulty 3/5 1-2 days Newbie friendliness 42/100

sanger/sequencescape#5724 · Opened Apr 21, 2026
Y26-124 - [BUG] manifest 'stuck' in processing state due to errors Open

Bug

Difficulty 3/5 1-2 days Newbie friendliness 45/100

sanger/sequencescape#5675 · Opened Apr 7, 2026
Y26-109 - [BUG] Re-uploading a multiplexed library manifest that was originally blank causes an error Open

Bug Size: S Value: 2

Difficulty 3/5 1-2 days Newbie friendliness 52/100

sanger/sequencescape#5656 · Opened Mar 31, 2026
Y26-102 - [Psd-exceptions] [Sequencescape Production] submissions#show (ActionView::Template::Error) "Couldn't find Submission with 'id'=\"SQPP-933... Open

Bug Tech roadmap 3 Unhandled Errors

Difficulty 4/5 3-5 days Newbie friendliness 38/100

sanger/sequencescape#5644 · Opened Mar 25, 2026
Y26-081 - Sequencescape - Add Javascript Testing workflow Open

Housekeeping Size: S

Difficulty 2/5 1-3 hours Newbie friendliness 55/100

sanger/sequencescape#5607 · Opened Mar 12, 2026
Y26-055 - Implement pagination for Labware Information Relations Open

Performance Tech roadmap 3

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5580 · Opened Mar 3, 2026
Y26-053 - Performance improvements for 384 well plate functions Open

Performance Tech roadmap 3

Difficulty 4/5 3-5 days Newbie friendliness 25/100

sanger/sequencescape#5578 · Opened Mar 2, 2026
Y26-051 - Reduce the loading time of sample manifest views Open

Performance Tech roadmap 3

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5576 · Opened Mar 2, 2026
Y26-049 - Reduce the loading time of the pipeline pages Open

Performance Tech roadmap 3

Difficulty 4/5 3-5 days Newbie friendliness 30/100

sanger/sequencescape#5574 · Opened Mar 2, 2026
Y26-048 - [BUG] NilClass passed to asset Open

Bug Tech roadmap 3 Unhandled Errors

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5573 · 1 comment · Opened Mar 2, 2026
Y26-042 - Extend Retention Instruction audit trail to manifest re-upload route Open

Bug Enhancement Size: M

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5558 · 1 comment · Opened Feb 19, 2026
Y26-041 - Send updated Retention Instructions to Traction Open

Enhancement Retention instructions Size: M

Difficulty 5/5 Over a week Newbie friendliness 42/100

sanger/sequencescape#5557 · Opened Feb 19, 2026
Y26-033 - Split Cost Codes for Additional Sequencing on Multiplex Library Tubes Open

Size: L

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5537 · Opened Feb 10, 2026
Y26-029 - Update the `labware_type` of library assets Open

Enhancement Size: M Value: 3

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5512 · Opened Feb 2, 2026
Y26-026 - [BUG] Accessioning does not enforce user permissions Open

Accessioning Bug

Difficulty 4/5 3-5 days Newbie friendliness 45/100

sanger/sequencescape#5500 · Opened Jan 27, 2026
Y26-022 - Sample Manifest country of origin data Open

Size: M

Difficulty 5/5 Over a week Newbie friendliness 25/100

sanger/sequencescape#5482 · 1 comment · 1 reaction · Opened Jan 21, 2026
Y26-009 - Fix sequencing batch release in UAT Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

sanger/sequencescape#5445 · 1 comment · Opened Jan 8, 2026
Y25-711 - PacBio - Create a new sample manifest including a project_id column to enable cost code to be received in Traction Open

Enhancement

Difficulty 4/5 3-5 days Newbie friendliness 38/100

sanger/sequencescape#5422 · 1 comment · Opened Dec 16, 2025
Y25-670 - Make BGE pipeline test more representative Open

BGE Research Size: S

Difficulty 3/5 1-2 days Newbie friendliness 35/100

sanger/sequencescape#5346 · Opened Nov 10, 2025
Y25-667 - As a team, we would like to define how we would perform in-place OS security updates on our OpenStack VMs, quantify the benefit and identify mitigations for risks to reliability and reproducibility. Open

OS upgrade Research

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5341 · Opened Nov 7, 2025
Y25-651 - Placeholder: Support future changes in the Global section of Ultima Samples sheets Open

Enhancement Ultima

Difficulty 5/5 Over a week Newbie friendliness 35/100

sanger/sequencescape#5327 · 1 comment · Opened Nov 3, 2025
Y25-605 - Backup Tickets while Neil is away Open

Difficulty 5/5 Over a week Newbie friendliness 1/100

sanger/sequencescape#5292 · Opened Oct 16, 2025
Y25-596 - Update Plate Naming to “DNA Stock Plate” in SequenceScape Open

Enhancement

Difficulty 4/5 3-5 days Newbie friendliness 35/100

sanger/sequencescape#5281 · Opened Oct 8, 2025
Y25-575 - API Key Rotation Open

Enhancement Size: M

Difficulty 5/5 Over a week Newbie friendliness 25/100

sanger/sequencescape#5247 · Opened Sep 17, 2025

sanger/sequencescape

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