Issues

• ExportCounts.R exports only local samples, drops merged external samples.

  gagneurlab/drop#680 · Filter by author inemesb opened on Sep 3, 2026

• Iso-seq

  gagneurlab/drop#679 · Filter by author gevro opened on Aug 31, 2026
  1

• Combining splice-effect prediction with expression-outlier detection (FRASER2 + OUTRIDER): independent evidence or double-counting?

  gagneurlab/drop#678 · Filter by author Vishvak12 opened on Aug 22, 2026

• EmptyDataError / ' Updating to current Sample Annotation' always triggers

  gagneurlab/drop#677 · Filter by author Queex opened on Aug 4, 2026

• countReads.R error

  gagneurlab/drop#676 · Filter by author Queex opened on Jul 31, 2026
  5

• Wrong sample-annotation file provided for pre-computed RNAseq data

  gagneurlab/drop#675 · Filter by author KuechlerO opened on Jul 3, 2026

• [Question] Can FRASER2 / DROP directly use Illumina DRAGEN SJ.out.tab files for splitread counting?

  gagneurlab/drop#674 · Filter by author shuangli-gel opened on Jul 1, 2026

• BiocParallel worker error in MAE QC step (create_matrix_dna_rna_cor.R) - could not find function "seqlevelsStyle"

  gagneurlab/drop#671 · Filter by author efe3506 opened on Apr 2, 2026
  3

• Error in rule AberrantSplicing_Overview_R when padjCutoff too low:

  gagneurlab/drop#670 · Filter by author noeldjitro opened on Mar 27, 2026
  1

• Feature Request: Easier Snakemake Resource Management.

  gagneurlab/drop#654 · Filter by author nickhsmith opened on Nov 26, 2025

• MissingOutputException error in rnaVariantCalling

  gagneurlab/drop#640 · Filter by author helenine opened on Sep 22, 2025

• optimHyperParams` function not found when running FRASER2 hyperparameter fitting

  gagneurlab/drop#634 · Filter by author akosycarz opened on Aug 13, 2025
  5

• Error in mae module

  gagneurlab/drop#630 · Filter by author helenine opened on Aug 8, 2025
  11

  

• HDF5 dataset ".o5_o3_psi5_psi3_dimnames/2" already exists

  gagneurlab/drop#621 · Filter by author ChiaraF32 opened on Jul 3, 2025
  4

• Unzip required for bioconda to run demo in biocontainer.

  gagneurlab/drop#619 · Filter by author brechtmann opened on Jul 1, 2025

• Error in rownames - AberrantExpression module

  gagneurlab/drop#606 · Filter by author Roshanshafiha opened on Apr 9, 2025
  10

• AbberantExpression module error

  gagneurlab/drop#605 · Filter by author Roshanshafiha opened on Apr 8, 2025
  8

• DESEq error on MonoallelicExpression_pipeline_MAE_deseq_mae_R module using demo dataset

  gagneurlab/drop#601 · Filter by author Roshanshafiha opened on Mar 25, 2025
  3

• Error in rule AberrantExpression_pipeline_Counting_mergeCounts_R

  gagneurlab/drop#600 · Filter by author kdewispelaere opened on Mar 20, 2025
  5

• Empty output files - No event detected

  gagneurlab/drop#587 · Filter by author laetitiarialland opened on Jan 21, 2025
  3

• rnaVariantCalling high-quality SNPs for hg38 in documentation

  gagneurlab/drop#578 · Filter by author yunkaig opened on Sep 17, 2024
  2

• Error in checkForAndCreateDir

  gagneurlab/drop#558 · Filter by author pkrithivasan opened on Jun 28, 2024
  13

  

• Running pipeline offline in trusted research environemnt

  gagneurlab/drop#523 · Filter by author chrisodhams opened on Feb 29, 2024
  1

  

• DROP installation issue on linux cluster

  enhancement
  gagneurlab/drop#510 · Filter by author gianfilippo opened on Jan 23, 2024
  1

• AberrantSplicing pipeline error

  gagneurlab/drop#507 · Filter by author akhilvelluva opened on Jan 10, 2024
  16