Clinical-Genomics/cg_lims

Issues

• LIMS improvements for RC WGS

  #530 opened 3 months ago by AbiDalby
  5

• LIMS improvements for RC TGA

  #532 opened 3 months ago by AbiDalby
  2

• Remove "delivery format"

  #557 opened 2 months ago by RasmusBurge-CG
  0

• New Watchmaker WGS workflow

  #520 opened 2 months ago by idalindegaard
  3

• Adjust express samples, based on priority, with more reads to sequence

  #556 opened 2 months ago by idalindegaard
  4

• Set date and missing reads automatically upon exit of Record details for RC WGS and TGA

  #554 opened 2 months ago by idalindegaard
  2

• Simplify moving between steps in lims

  #553 opened 2 months ago by EmiliaRegazzoni
  1

• Add Arnold support to the new Watchmaker workflow

  #555 opened 2 months ago by Karl-Svard
  0

• Enable permission to modify/add notes in completed steps

  #544 opened 2 months ago by mariarevenikioti
  2

• Generalize make_pooling_map for other workflows than covid

  #552 opened 2 months ago by idalindegaard
  0

• Align delivery formats to our current delivery options

  #548 opened 2 months ago by karlnyr
  2

• Feature Request: Add new trending tool for top-ups

  #543 opened 2 months ago by Karl-Svard
  1

• Update Queue samples for sequencing configuration in several LIMS workflows

  #546 opened 2 months ago by idalindegaard
  2

• Update "Missing Reads pool (M)" udf for single samples as well

  #513 opened 5 months ago by idalindegaard
  0

• Have an index check confirmation in Define Run Format and Calculate Volumes (NovaSeq X)

  #521 opened 4 months ago by idalindegaard
  0

• Update Queue samples for sequencing EPP order when finishing the microbial workflow

  #545 opened 2 months ago by idalindegaard
  2

• Compliance to Atlas document Validation and verifications and suggestion for improvment to templates

  #541 opened 3 months ago by AnnaLeinfelt
  4

• Improve sequencing planning and pooling, prio 1 project

  #498 opened 3 months ago by EmiliaRegazzoni
  4

• New index set added for old naming formats

  #542 opened 3 months ago by Karl-Svard
  0

• New "Check required" EPP for the Aggregation step in SARS-CoV-2 v4 wf

  #539 opened 3 months ago by idalindegaard
  2

• Merge index and sample duplication check in Define Run Format

  #537 opened 3 months ago by Karl-Svard
  1

• Re-design pool_normalization script to normalize other samples than just pools - and make "Total Volume (uL)" work on process level

  #529 opened 3 months ago by idalindegaard
  2

• Make script calculate_water generalized for different kinds of udfs

  #528 opened 3 months ago by idalindegaard
  2

• Always add reads for negative controls - NovaSeq X v1 WF

  #524 opened 3 months ago by karlnyr
  3

• Add QC checks for Average Size (bp) and % of Total in Tapestation steps TWIST v8

  #525 opened 3 months ago by idalindegaard
  3

• WGS reception control - Change criterias for QC flags

  #527 opened 3 months ago by ceciliamattssonscilifelab
  1

• Add Raredisease as option in LIMS

  #494 opened 8 months ago by peterpru
  1

• Raise the minimum Adjusted Bulk Pool Volume (ul) in step Define Run Format and Calculate Volumes (NovaSeq X)

  #522 opened 3 months ago by idalindegaard
  2

• New EPP to adjust the sequencing reads for samples in Define Run Format and Calculate Volumes (NovaSeq X)

  #514 opened 4 months ago by idalindegaard
  3

• Add Standards with Hamilton Norm-pooling for Quantit

  #523 opened 4 months ago by FayKanellidou
  0

• New PacBio Revio workflow in LIMS

  #518 opened 4 months ago by idalindegaard
  0

• Update the micro workflow

  #511 opened 6 months ago by FayKanellidou
  2

• Make a combo automation for "Atlas Method Document" and "Check missing sample udfs and set Next Step Remove" in micro RC step

  #512 opened 6 months ago by idalindegaard
  1

• Automate inventory calculations by retrieving number of samples processed in relevant LIMS steps

  #510 opened 7 months ago by idalindegaard
  0

• Merge Copy Concentration (nM) EPPs in step Define Run Format and Calculate Volumes (NovaSeq X)

  #509 opened 7 months ago by idalindegaard
  1

• Verify that the sample UDF Passed Initial QC is set in all reception control steps

  #508 opened 7 months ago by Karl-Svard
  0

• Remove the Bravo Shirin from lims steps

  #506 opened 7 months ago by FayKanellidou
  3

• The available volume for ONT sequencing reloads doesn't work with re-preps

  #504 opened 7 months ago by Karl-Svard
  0

• Addition of a drop down menu to select the index plate in micro library prep

  #501 opened 7 months ago by AbiDalby
  3

• New "Set RIN QC" EPP to accept cust127 samples with RIN over 4

  #502 opened 7 months ago by idalindegaard
  3

• Add "Check required" EPP for Output Container Barcode in step Post-PCR bead purification v1 (wf Microbial WGS v7)

  #499 opened 8 months ago by idalindegaard
  0

• Automation of Rsquare values from Quantit file to LIMS

  #497 opened 8 months ago by idalindegaard
  0

• Pre-set for Quant-it set up on Hamilton

  #496 opened 8 months ago by idalindegaard
  0

• Add missing UDF check for Aliquot samples for enzymatic fragmentation TWIST

  #495 opened 8 months ago by Karl-Svard
  1

• Set prepared_at for RML samples

  #493 opened 9 months ago by islean
  1

• Initial testing - ONT v2 workflow

  #468 opened 9 months ago by amandaraud
  3

• Pausing the upload of data to Arnold during cg-prod-services maintenance window 2024-03-12

  #477 opened 9 months ago by Karl-Svard
  3

• Add new "Sample delivered" automation and merge it with the rest of the Delivery v1 EPPs

  #472 opened 10 months ago by Karl-Svard
  1

• Add a duplicate barcode warning in the lims RC steps

  #476 opened 10 months ago by FayKanellidou
  3

• WGS RC: Request for a new feature in LIMS to avoid plate contaminations in Hamilton

  #471 opened a year ago by ceciliamattssonscilifelab
  0