lgragert srtr-impute-pubsaf2306 issues

lgragert / srtr-impute-pubsaf2306

Extract HLA typing from SRTR and format data for 9-locus high resolution HLA imputation

1 stars 0 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

AgMM and AAMM Summary Tables Update

#21 alyspayn opened 3 months ago
2
Profile Amino Acid Mismatch Frequency Across Imputation Replicates and Correlate with TRS

#20 lgragert closed 5 months ago
3
Within 0-DR AgMM transplants, tally donor-recip allele mismatches and AAMM

#19 lgragert opened 8 months ago
0
Build Python library with unit tests using IMGT/HLA nucleotide XML instead of MSF alignment files

#18 lgragert opened 9 months ago
0
enumerate the high res alleles of the transplant pairs where HLA-A position 54 called a mismatch and check case each with the IMGT/HLA alignment tool.

#17 lgragert opened 9 months ago
1
Compute AAMM frequency by position and compare to previous study

#16 lgragert closed 7 months ago
1
Substitute new files for antigen-level HLA typing as in input to imputation

#15 lgragert opened 9 months ago
0
Compute allele-level TRS at ARD level

#14 lgragert opened 10 months ago
0
Update AAMM code to include only exon 2 position for Class II loci

#13 lgragert opened 10 months ago
0
Compute allele mismatch categories also at the antigen recognition domain (ARD) level

#12 lgragert closed 9 months ago
3
Create tables and plots of frequency distributions of HLA AA-MMs for all class I and class II loci

#11 lgragert opened 10 months ago
0
UpSet Plots for HLA Mismatch Categories

#10 lgragert opened 10 months ago
1
For each HLA locus, plot fraction with typing reported by year

#9 lgragert opened 10 months ago
1
TODO - Run script on I2C2 instead of Cypress

#8 alyspayn closed 3 months ago
2
TODO - New repository for the post-FIBERS interpretation analyses

#7 alyspayn closed 10 months ago
1
TODO - Add eplet mismatch scripts from Grace

#6 alyspayn closed 3 weeks ago
0
TODO - Improve aa_mm_biopython performance

#5 alyspayn opened 10 months ago
0
TODO - Assign AA-MM for the full protein

#4 alyspayn opened 10 months ago
1
Compute HLA-DR molecule amino acid mismatch considering DRB1/3/4/5 gene copies

#3 alyspayn opened 10 months ago
1
TODO - Add Typing Resolution Score for each position

#2 alyspayn closed 8 months ago
3
TODO - Add allele mismatch calculations to the antigen mismatch files

#1 alyspayn closed 10 months ago
0