bailey-lab/miplicorn

Issues

• complete aggregated aa prevalence calcs

  #51 opened 6 months ago by gtollefson
  1

• Implement GDS

  #50 opened 2 years ago by gtollefson
  0

• Tests failing on all platforms

  #48 opened 2 years ago by gtollefson
  1

• Frequency is miscalculated currently

  #47 opened 2 years ago by JeffAndBailey
  1

• Coverage plot

  #45 opened 2 years ago by arisp99
  0

• Default plots for tables

  #43 opened 2 years ago by arisp99
  1

• Improve mutation frequency error message when no reference UMI count exists

  #41 opened 2 years ago by arisp99
  1

• Poor performance of amino acid conversion functions

  #40 opened 3 years ago by arisp99
  1

• Mutation prevalence calculation using genotype table

  #37 opened 3 years ago by arisp99
  1

• Release miplicorn 0.2.1

  #36 opened 3 years ago by arisp99
  0

• Apply threshold to alternate UMI count

  #35 opened 3 years ago by arisp99
  0

• Read in genotype tables

  #34 opened 3 years ago by arisp99
  0

• Release miplicorn 0.2.0

  #33 opened 3 years ago by arisp99
  0

• Clarify how to work with metadata & multiple probe sets

  #32 opened 3 years ago by arisp99
  0

• Frequency of mutations

  #29 opened 3 years ago by arisp99
  0

• Filtering functions

  #21 opened 3 years ago by arisp99
  2

• Mutation prevalence tables and plots

  #23 opened 3 years ago by djgies
  0

• Issues with table configuration after using 'read In' Functions for ref/alt/coverage tables

  #27 opened 3 years ago by SawyerRSmith
  5

• Deprecate `chromosome_map()`

  #25 opened 3 years ago by arisp99
  0

• Copy Number Variation analysis

  #24 opened 3 years ago by melconrad
  0

• Formating error for "mutation_name" in AN tables

  #22 opened 3 years ago by SawyerRSmith
  2

• Sample IDs format is being changed when read in data

  #20 opened 3 years ago by SawyerRSmith
  1

• read functions unable to process NAs

  #19 opened 3 years ago by SawyerRSmith
  1

• adding haplotype_counts.csv to miplicorn::read()

  #15 opened 3 years ago by SawyerRSmith
  0

• Labels for Insertions and Deletions

  #3 opened 3 years ago by SawyerRSmith
  1

• Cannot generate a chromosome map given arbitrary column names

  #14 opened 3 years ago by arisp99
  0

• Release miplicorn 0.1.0

  #10 opened 3 years ago by arisp99
  0

• Enhanced chromosome map

  #11 opened 3 years ago by arisp99
  0

• MIPr Read In function for AA tables instead of just AN tables

  #9 opened 3 years ago by SawyerRSmith
  2

• Misformatted metadata causes incorrect output

  #8 opened 3 years ago by arisp99
  0

• Sort data

  #5 opened 3 years ago by arisp99
  0

• AA abbreviations

  #1 opened 3 years ago by djgies
  1