Issues

• current annotator only works for imputation done in whole chromsome

  gymrek-lab/TRTools#263 · Filter by author nicholema opened on May 27, 2026

• StatSTR is throwing type error with --vcftype longtr

  gymrek-lab/TRTools#262 · Filter by author Ramperumaull opened on Apr 28, 2026

• AssociaTR generates the GWAS results for STR. The QQ-plot graph is abnormal. How to solve this problem?

  gymrek-lab/TRTools#259 · Filter by author dywzzz opened on Jan 12, 2026

• Suspicious Warnings from --update-ref-alt Despite Unchanged Alleles

  gymrek-lab/TRTools#258 · Filter by author nicholema opened on Jun 18, 2025

• the --update-sample-from-file does not work with --vcfs-list

  gymrek-lab/TRTools#257 · Filter by author yli091230 opened on Jun 6, 2025

• Issue regarding mergeSTR

  gymrek-lab/TRTools#256 · Filter by author jawad9-11 opened on Apr 22, 2025

• When performing quality control on dumpSTR for a T2T genome, what kind of file should be provided for the --filter-regions option?

  gymrek-lab/TRTools#255 · Filter by author jingydz opened on Apr 15, 2025

• How to modify TRF's output file as an input?

  gymrek-lab/TRTools#254 · Filter by author tzhu-bio opened on Apr 10, 2025

• Information about handling qcSTR

  gymrek-lab/TRTools#252 · Filter by author jawad9-11 opened on Feb 24, 2025

• MergeSTR creating multiple duplicate entries in the output

  gymrek-lab/TRTools#251 · Filter by author Dhaksnamoorthy opened on Feb 11, 2025
  3

• Request: AnnotaTR dosage min/max instead of sum

  gymrek-lab/TRTools#250 · Filter by author raphaelbetschart opened on Jan 22, 2025

• feat: a command for merging TR and SNP PGEN files

  gymrek-lab/TRTools#246 · Filter by author aryarm opened on Dec 17, 2024
  1

• switch to pixi

  gymrek-lab/TRTools#236 · Filter by author aryarm opened on Oct 10, 2024

• Converting Beagle imputed VCF for TRTools

  gymrek-lab/TRTools#209 · Filter by author maegsul opened on Jan 24, 2024
  5

• statSTR handling of chrY

  gymrek-lab/TRTools#207 · Filter by author htanudisastro opened on Jan 22, 2024
  1

• Merge STR: More than one value found for END

  gymrek-lab/TRTools#196 · Filter by author bharathramh opened on Dec 3, 2023
  1

• dumpSTR is crashed to process the male chrX

  gymrek-lab/TRTools#185 · Filter by author weizhu365 opened on Jul 26, 2023

• mergeSTR can't merge haploid data from HipSTR output

  gymrek-lab/TRTools#182 · Filter by author Lidweixiang opened on May 15, 2023
  2

• order of operations in dumpSTR

  gymrek-lab/TRTools#181 · Filter by author bioinfoYY opened on Apr 17, 2023

• Logistic regression in AssociaTR

  gymrek-lab/TRTools#178 · Filter by author asuresh2 opened on Mar 6, 2023
  5

• DumpSTR: Without --drop-filter, the output shows HET=-1 locus

  gymrek-lab/TRTools#177 · Filter by author Paddy1401 opened on Feb 10, 2023
  1

• Some questions about understanding the output of qcSTR

  gymrek-lab/TRTools#171 · Filter by author YiweiNiu opened on Nov 3, 2022

• Bring back support for GangSTR require support

  gymrek-lab/TRTools#167 · Filter by author gymreklab opened on Aug 25, 2022

• IndexError: tuple index out of range

  gymrek-lab/TRTools#157 · Filter by author emersond368 opened on May 24, 2022
  2

  

• compareSTR length genotype assumption

  gymrek-lab/TRTools#154 · Filter by author htanudisastro opened on Mar 7, 2022