Genentech / midasHLA

R package enabling statistical association analysis and using immunogenetic data transformation functions for HLA amino acid fine mapping, analysis of HLA evolutionary divergence as well as HLA-KIR interactions.

https://genentech.github.io/MiDAS

Genentech/midasHLA Issues

how to use Match_kir_nomenclature_gene.txt?
Updated 7 months ago1
add missing library import to tutorial
Updated 7 months ago
Can not update external data
Updated 8 months ago8
Fix tutorial to accomodate new amino acid alignments data
Updated 8 months ago1
Migrate HLA allginemnts to ipdDb BioC package
Closed 8 months ago1
Add test for variable peptide region
Closed 8 months ago1
function omnibus_groups_filter
Closed 8 months ago4
Automate hla and kir allele freqeuncies udpates
Updated 8 months ago
Explanation of the result
Closed 8 months ago7
midastowide not working
Closed 8 months ago2
Obtain supertypes
Closed 8 months ago2
HLA allele frequency by phenotype/disease
Closed 8 months ago4
Divergaed version numbering in BioC repository
Closed 9 months ago6
How to add covariate information into glm model with midas object
Closed 10 months ago2
External data version
Closed 10 months ago
inference of amino acids
Closed 10 months ago5
KIR module
Closed a year ago4
Handle missing values
Closed a year ago9
Error in approx(sp$y, sp$x, xout = cutoff) : need at least two non-NA values to interpolate
Closed 2 years ago3
Method for MiDAS filtering based on RE pattern
Closed 2 years ago
Check for presence of both alleles
Closed 2 years ago
connection timeout when downloading latest datasets
Closed 2 years ago2
"parsingFunctions.R" Does this script only apply to HLA-HD results?
Closed 3 years ago2
Imporve missing tidyer error message
Updated 4 years ago
Add README
Closed 4 years ago
Update vignettes
Closed 4 years ago
sparse @return documentation
Closed 4 years ago1
Inheritance model as an required argument to runMiDAS
Closed 4 years ago1
Review comments
Closed 4 years ago5
Bw4/Bw6 frequency estimate takes values > 100%
Closed 4 years ago5
getAllelesForAA does not acept signal peptide amino acid positions (<0)
Closed 4 years ago1
Experiment type consistency
Closed 4 years ago1
Missing Suggests ggpubr
Closed 4 years ago1
HLA resolution nomenclature
Updated 4 years ago
Frequency calculation; "NA"s are counted as non-carriers
Closed 4 years ago1