kvittingseerup/IsoformSwitchAnalyzeR

Issues

• pfam webserver output files incompatibility

  #227 opened a year ago by Blondeau-Bidet
  4

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

  #253 opened 5 months ago by ShannonTown
  4

• isoformFeatures and exons error could not be solved

  #251 opened 6 months ago by Sparkle-27
  1

• problem in running exampleSwitchListAnalyzed

  #252 opened 6 months ago by cariocow
  1

• About import R data

  #255 opened 4 months ago by border-info-nt
  0

• Merge many switchAnalyzeRlist to run extractSwitchOverlap

  #254 opened 5 months ago by Oliverfeudj
  7

• The isoform_id in isoformFeatures and exons does not match

  #239 opened 8 months ago by mpage21
  2

• example of dataset to use IsoformSwitchAnalyzeR

  #249 opened 7 months ago by jchelbling
  2

• (simpleError(msg, call)) : in using analyzeSwitchConsequences

  #229 opened a year ago by liscruk
  4

• Issue with importRdata() : the designMatrix is not full rank

  #247 opened 7 months ago by Tijs-dot
  3

• the output of importRdata is different?

  #248 opened 7 months ago by huawen-poppy
  1

• AIUPred Compatibility

  #246 opened 7 months ago by NanoCoreUSA
  1

• working with quantification tools that detect novel isoforms

  #244 opened 7 months ago by sparthib
  1

• how is `iso_value` transformed to `IF` ?

  #245 opened 7 months ago by sparthib
  0

• Visualization problem

  #243 opened 8 months ago by dawangran
  3

• Import data for isoquant

  #242 opened 8 months ago by dawangran
  1

• Version Discrepancy (GitHub vs. Bioconductor)

  #241 opened 8 months ago by NanoCoreUSA
  1

• Joining multiple switch lists

  #240 opened 8 months ago by rugilemat
  0

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

  #238 opened 8 months ago by bozbezbozzel
  3

• Continous condition in design matrix?

  #236 opened 8 months ago by amkilpatrick
  3

• Issues with importRdata()

  #237 opened 9 months ago by R-relota
  1

• Gene position for eqtl analysis

  #207 opened 9 months ago by sumageb
  1

• CPAT3 compatibility

  #235 opened 9 months ago by rugilemat
  2

• What are the SV values created in design matrix?

  #205 opened 9 months ago by ElvaWong
  3

• How do I get exon inclusion level of alternative splicing events in each group

  #215 opened 9 months ago by orange-3711
  1

• File import order impacts IsoformSwitchAfterDEXSeq

  #217 opened 9 months ago by LetiziaMe
  2

• Error in importRdata

  #221 opened 9 months ago by urwahnawaz
  2

• Question about reference genome and annotations

  #222 opened 9 months ago by sparthib
  1

• Import after STAR Alignment

  #224 opened 9 months ago by bassanio
  1

• error: Error in H %*% t(dat) : non-conformable arguments

  #218 opened 9 months ago by sumitra20
  1

• comparisonsToMake wiith 4four conditions

  #234 opened 10 months ago by Vermarashi
  2

• Warnning -- remove duplicates

  #226 opened 10 months ago by Annie133
  2

• Cannot import CPAT

  #210 opened 10 months ago by ElvaWong
  2

• Error with importIsoformExpression

  #232 opened 10 months ago by EntoErin
  1

• ImportRData Ensembl GTF annotation vs Matrix 0 Overlap

  #228 opened 10 months ago by Blondeau-Bidet
  9

• Gene expression values using IsoformSwitchAnalyzeR

  #208 opened 10 months ago by Harshangda
  1

• Question on importIsoformExpression()

  #225 opened 10 months ago by sparthib
  1

• IsoformSwitchAnalyzeR could not handle 394 wheat samples at one time

  #230 opened 10 months ago by sumageb
  3

• addORFfromGTF(): Error in in h(simpleError(msg, call))

  #219 opened a year ago by Catv97
  1

• addORFfromGTF: cannot reconcile novel isoform IDs and ref gene annotations

  #214 opened a year ago by srisarya
  3

• Error in vroom_(file, delim = delim %||% col_types$delim, col_names = col_names, : bad value

  #213 opened a year ago by ErickMUO
  2

• StringTie readLength when using long reads

  #209 opened a year ago by majdabdul
  2

• isoformSwitchAnalysisCombined() error?

  #212 opened a year ago by marwa38
  2

• Amino acid sequence files are too huge for PFAM scan (web version)

  #211 opened a year ago by ElvaWong
  0

• Error importing StringTie output

  #206 opened a year ago by majdabdul
  1

• Issue using importRdata

  #200 opened 2 years ago by lauralh5
  2

• Problem in importRdata

  #202 opened 2 years ago by RamonSLPS
  8

• Doubt about splicing analysis

  #203 opened 2 years ago by RamonSLPS
  2

• UTR length

  #204 opened 2 years ago by lananh-ngn
  3

• Issue with the data?

  #201 opened 2 years ago by HAFSAKHAN9
  2