Genentech/midasHLA

Issues

• Can midasHLA output the inferred protein sequences?

  #41 opened 2 months ago by bsb2014
  1

• how to use Match_kir_nomenclature_gene.txt?

  #40 opened 9 months ago by alicekiki
  1

• add missing library import to tutorial

  #39 opened 9 months ago by mcjmigdal
  0

• Can not update external data

  #32 opened 10 months ago by bsb2014
  8

• Fix tutorial to accomodate new amino acid alignments data

  #37 opened 10 months ago by mcjmigdal
  1

• Migrate HLA allginemnts to ipdDb BioC package

  #34 opened 10 months ago by mcjmigdal
  1

• Add test for variable peptide region

  #38 opened 10 months ago by mcjmigdal
  1

• function omnibus_groups_filter

  #36 opened 10 months ago by bsb2014
  4

• Automate hla and kir allele freqeuncies udpates

  #35 opened 10 months ago by mcjmigdal
  0

• Explanation of the result

  #33 opened 10 months ago by bsb2014
  7

• midastowide not working

  #24 opened 10 months ago by jumoline
  2

• Obtain supertypes

  #30 opened 10 months ago by xiw588
  2

• HLA allele frequency by phenotype/disease

  #23 opened 10 months ago by BioinformaNicks
  4

• Divergaed version numbering in BioC repository

  #27 opened a year ago by mcjmigdal
  6

• How to add covariate information into glm model with midas object

  #28 opened a year ago by alicekiki
  2

• External data version

  #26 opened a year ago by bsb2014
  0

• inference of amino acids

  #25 opened a year ago by bsb2014
  5

• KIR module

  #22 opened a year ago by Pharmacogenetecist
  4

• Handle missing values

  #21 opened 2 years ago by xiw588
  9

• Error in approx(sp$y, sp$x, xout = cutoff) : need at least two non-NA values to interpolate

  #20 opened 2 years ago by bri2020
  3

• Method for MiDAS filtering based on RE pattern

  #1 opened 2 years ago by mcjmigdal
  0

• Check for presence of both alleles

  #19 opened 2 years ago by mcjmigdal
  0

• connection timeout when downloading latest datasets

  #18 opened 2 years ago by fmobegi
  2

• "parsingFunctions.R" Does this script only apply to HLA-HD results?

  #17 opened 4 years ago by jingydz
  2

• Imporve missing tidyer error message

  #16 opened 4 years ago by mcjmigdal
  0

• Add README

  #14 opened 4 years ago by mcjmigdal
  0

• Update vignettes

  #8 opened 4 years ago by mcjmigdal
  0

• sparse @return documentation

  #9 opened 4 years ago by mcjmigdal
  1

• Inheritance model as an required argument to runMiDAS

  #15 opened 4 years ago by mcjmigdal
  1

• Review comments

  #5 opened 4 years ago by LTLA
  5

• Bw4/Bw6 frequency estimate takes values > 100%

  #3 opened 4 years ago by mcjmigdal
  5

• getAllelesForAA does not acept signal peptide amino acid positions (<0)

  #12 opened 4 years ago by mcjmigdal
  1

• Experiment type consistency

  #6 opened 4 years ago by chammer80
  1

• Missing Suggests ggpubr

  #7 opened 4 years ago by mcjmigdal
  1

• HLA resolution nomenclature

  #10 opened 4 years ago by chammer80
  0

• Frequency calculation; "NA"s are counted as non-carriers

  #2 opened 4 years ago by mcjmigdal
  1