Issues

• Question about preFilter() with unbalanced group sizes

  kvittingseerup/IsoformSwitchAnalyzeR#321 · Filter by author photos78 opened on Sep 3, 2026

• error in importRdata

  kvittingseerup/IsoformSwitchAnalyzeR#304 · Filter by author ELMMA-FUN opened on Feb 25, 2026

• Use CPAT for the ORF

  kvittingseerup/IsoformSwitchAnalyzeR#277 · Filter by author mpage21 opened on Mar 20, 2025
  2

• extractSequence(): The genomeObject argument must be a BSgenome

  kvittingseerup/IsoformSwitchAnalyzeR#276 · Filter by author SwiftSeal opened on Mar 17, 2025
  4

• Question about IUPred2A output handling

  kvittingseerup/IsoformSwitchAnalyzeR#274 · Filter by author mpage21 opened on Mar 11, 2025
  2

• Does order matter in complex design?

  kvittingseerup/IsoformSwitchAnalyzeR#259 · Filter by author adc0032 opened on Nov 19, 2024

• question on coding potential, PTC and switch plot categories

  kvittingseerup/IsoformSwitchAnalyzeR#258 · Filter by author sparthib opened on Nov 18, 2024

• analyzeIUPred2A() Error in $<-.data.frame(*tmp*, "idr_type", value = "IDR")

  kvittingseerup/IsoformSwitchAnalyzeR#253 · Filter by author ShannonTown opened on Aug 1, 2024
  6

• AIUPred Compatibility

  enhancement
  kvittingseerup/IsoformSwitchAnalyzeR#246 · Filter by author NanoCoreUSA opened on Jun 4, 2024
  3

• how is iso_value transformed to IF ?

  kvittingseerup/IsoformSwitchAnalyzeR#245 · Filter by author sparthib opened on Jun 3, 2024

• The isoform_id in isoformFeatures and exons does not match

  kvittingseerup/IsoformSwitchAnalyzeR#239 · Filter by author mpage21 opened on May 9, 2024
  3

• Question about sva correction: why does IsoformSwitchAnalyzeR tell me I have a lot of SVs but sva actually disagrees?

  kvittingseerup/IsoformSwitchAnalyzeR#238 · Filter by author bozbezbozzel opened on May 1, 2024
  3

• CPAT3 compatibility

  enhancement
  kvittingseerup/IsoformSwitchAnalyzeR#235 · Filter by author rugilemat opened on Apr 5, 2024
  2

• Doubt about splicing analysis

  kvittingseerup/IsoformSwitchAnalyzeR#203 · Filter by author ghost opened on Jun 22, 2023
  2

• Issue loading GTF

  kvittingseerup/IsoformSwitchAnalyzeR#198 · Filter by author EglantineMB opened on Jun 9, 2023
  2

• Error in dplyr::full_join():! ... must be empty when creating aSwitchList

  kvittingseerup/IsoformSwitchAnalyzeR#197 · Filter by author archaemenes opened on May 29, 2023
  3

• Mouse ENSEMBL ref gtf file

  kvittingseerup/IsoformSwitchAnalyzeR#196 · Filter by author lisataylorr18 opened on May 19, 2023
  1

• readLength option from importIsoformExpression for stringtie on ONT long read sequencing

  kvittingseerup/IsoformSwitchAnalyzeR#195 · Filter by author eltonjrv opened on May 18, 2023
  13

• Tool available in Galaxy

  kvittingseerup/IsoformSwitchAnalyzeR#194 · Filter by author gallardoalba opened on May 17, 2023

• could it plot DTU based on many samples with same one condition?

  kvittingseerup/IsoformSwitchAnalyzeR#183 · Filter by author icanccwhite opened on Apr 3, 2023
  4

• analyzePFAM error with isoquant data

  kvittingseerup/IsoformSwitchAnalyzeR#182 · Filter by author rsalz opened on Mar 24, 2023
  14

• Will multithreading decrease the runtime of isoformSwitchTestDEXSeq() step?

  kvittingseerup/IsoformSwitchAnalyzeR#151 · Filter by author Pentayouth opened on Nov 21, 2022

• Get annotation from TxDb?

  enhancement
  kvittingseerup/IsoformSwitchAnalyzeR#76 · Filter by author lvclark opened on Jul 9, 2020
  9

  

• Transcript names for switchPlot

  enhancement
  kvittingseerup/IsoformSwitchAnalyzeR#41 · Filter by author crj32 opened on Aug 13, 2019
  1

  

• Multi-threaded analysis support request

  enhancement
  kvittingseerup/IsoformSwitchAnalyzeR#34 · Filter by author crj32 opened on Apr 12, 2019
  5