epigen/RnBeads

Issues

• Infinium MethylationEPIC v2.0 normalization methods

  #57 opened 2 months ago by christpa
  1

• dot-dot notation (`..count..`) deprecated in ggplot2 3.4.0.

  #56 opened 2 months ago by shkushwaha
  0

• Error in order(...) : argument 1 is not a vecto

  #55 opened 4 months ago by Arsoy752
  0

• Availability of MMBC functional annotation

  #34 opened 2 years ago by kimsjune
  1

• Some IDAT files are not present in the supplied base directory

  #54 opened 4 months ago by jennyujin22
  2

• ERROR: Some IDAT files are not present in the supplied base directory

  #38 opened 6 months ago by TatiMoe
  2

• Infinium MethylationEPIC v2.0 Kit

  #46 opened a year ago by jozsefkun
  33

• Error with Graphics API version since I upgraded my R version

  #35 opened 6 months ago by AlejRSosa
  3

• HPC submission issues.

  #23 opened 6 months ago by sunabcun
  2

• BeadArray hg38 annotation

  #20 opened 6 months ago by demuellae
  0

• Support for the Illumina Mouse Array

  #14 opened 6 months ago by schmic05
  8

• The loaded bed file has less columns than expected, check the correctness of column assignment (or the BED style option)

  #50 opened 8 months ago by mehmet-cay
  2

• hclustfun(distr) : NA/NaN/Inf in foreign function call (arg 10)

  #48 opened 10 months ago by VivianBailey
  1

• Problem: Estimating Optimal Numbers of Clusters

  #39 opened a year ago by mariacastillo982
  5

• Possible to perform cell-type correction and paired analysis?

  #47 opened a year ago by KristenKrolick
  0

• Problems: CpG annotation

  #45 opened a year ago by dnalinkbi
  1

• R Error in h(simpleError(msg， call))

  #44 opened a year ago by mumdark
  3

• Beta Matrix Input Using MMBC

  #43 opened a year ago by sjthursby
  5

• Exploratory Analysis: Error in h(simpleError(msg, call))

  #42 opened a year ago by jofa123
  0

• EPIC data normalization

  #41 opened a year ago by TatiMoe
  2

• Error in import data directly from GEO（rnb.read.geo）

  #40 opened a year ago by mumdark
  2

• Error in differential variability with paired setup

  #37 opened a year ago by alex-d13
  2

• dpval lacks scientific notation

  #36 opened a year ago by kimsjune
  2

• error: unsupported annotation type in 'annotation' function for hg38

  #25 opened 3 years ago by ArashDepp
  8

• invalid data.source parameter, bed.dir is not found, or is not directory

  #33 opened 2 years ago by robert-player
  10

• ERROR Undefined platform; unexpected or missing IDAT files

  #32 opened 2 years ago by mishraa31
  2

• Is ~sample_type + time_point analysis possible in rnb.execute.computeDiffMeth?

  #31 opened 2 years ago by naumenko-sa
  0

• RnBeads error on HPC

  #30 opened 2 years ago by bioinfonext
  0

• Error in rnb.region.types.for.analysis("hg19") : invalid value for rnb.set

  #29 opened 3 years ago by xlucpu
  0

• get.table and Cg_id??

  #27 opened 3 years ago by ClarissaFeuersteinAkgoz
  0

• Problems during EPIC array preprocessing - normalization step

  #26 opened 3 years ago by justannwska
  0

• Functional normalization for EPIC data

  #15 opened 4 years ago by schmic05
  1

• ff function issues?

  #22 opened 3 years ago by sunabcun
  4

• Bug on LOLA

  #21 opened 3 years ago by pietrisko
  3

• Implement bead count filtering for microarrays

  #19 opened 4 years ago by schmic05
  0

• Potential shift in HM450K 'rs' probes annotation in rnb.set

  #18 opened 4 years ago by YoannPa
  0

• RnBeadsDJ does not start

  #17 opened 4 years ago by schmic05
  2

• Restartable analysis

  #16 opened 4 years ago by demuellae
  1

• pepr and RnBeads

  #3 opened 7 years ago by nsheff
  7

• Is rnb.execute.import() has a bug in reading bismarkCytosine formart bed file

  #7 opened 4 years ago by cby01
  5

• Minor issue in docs related to import

  #6 opened 4 years ago by markziemann
  0

• Setting options for RnBeads: cell-type and diff. methylation for continuous data

  #13 opened 4 years ago by samuel-carleial
  1

• Running RnBeads in a computing cluster (Ghostscript needed?)

  #11 opened 4 years ago by samuel-carleial
  6

• Using the latest ff package breaks the BigFfMat function

  #10 opened 4 years ago by berguner
  0

• GO enrichment analysis fails in R 4.0

  #9 opened 4 years ago by berguner
  6

• Question on import methylation intensity

  #8 opened 4 years ago by yeswzc
  8

• Not working for CHH context methylation data

  #5 opened 5 years ago by M-gowda
  1

• Error in UseMethod("rleunpack")

  #4 opened 5 years ago by loganylchen
  4