ftwkoopmans/msdap

Issues

• Missing value

  #44 opened 13 days ago by Jessica-UdeS
  0

• remove_proteins_by_name

  #43 opened 14 days ago by szabzola
  2

• Request: Use data filtered by group for abundance and DEA/Differential Detection

  #42 opened 22 days ago by jmvarberg
  4

• errors generating PDF report

  #31 opened 4 months ago by ftwkoopmans
  2

• output tables from analysis_quickstart()

  #40 opened a month ago by brookegenovese
  1

• Is it possible to do paired differential expression analysis in MSDAP?

  #38 opened a month ago by SongbiaoZhu
  1

• Support different columns for sample contrasts

  #37 opened 2 months ago by sooheon
  1

• 0 proteingroups mapped

  #41 opened 2 months ago by benj-sic
  2

• removing decoy proteins and contaminants from the final data report

  #39 opened 2 months ago by kamalmdmostafa
  3

• Reading FragPipe results

  #33 opened 2 months ago by szabzola
  2

• msqrob is returning error

  #36 opened 2 months ago by jd690764
  4

• Support DIA-NN 1.9's parquet report format

  #34 opened 2 months ago by sooheon
  2

• gene symbol capitalization

  #35 opened 2 months ago by jd690764
  2

• Turning off normalization

  #32 opened 4 months ago by bsphinney
  7

• mixed effect model

  #28 opened 4 months ago by brookegenovese
  2

• Failure to generate QC report

  #29 opened 4 months ago by biancacotto
  2

• Output PCA data?

  #30 opened 5 months ago by michaelsteidel86
  5

• error in plot_peptide_data

  #27 opened 5 months ago by jd690764
  3

• Export plots

  #26 opened 6 months ago by enriiquee
  2

• problem generating foldchange distribution plots in report

  #25 opened 6 months ago by jd690764
  6

• Enrichment using DD proteins

  #24 opened 9 months ago by AhadAbdalla
  2

• Can I keep protein groups separate?

  #22 opened a year ago by ht-lau
  1

• Volcanos Plot

  #23 opened a year ago by camymhe
  1

• integer overflow error / working with huge datasets

  #7 opened a year ago by fcgportal
  5

• No match-between-runs data found for IonQuant

  #8 opened a year ago by ionurchin
  13

• Way to handle missing value?

  #21 opened a year ago by ht-lau
  3

• imputation

  #19 opened a year ago by medsoccer
  1

• imputation

  #20 opened a year ago by medsoccer
  0

• Log2fold or ratio

  #18 opened a year ago by medsoccer
  1

• Technical replicates averaging before group comparation

  #14 opened a year ago by DiQin2023
  3

• Error in Summarise_stats

  #17 opened a year ago by medsoccer
  2

• Technical replicates

  #16 opened a year ago by andrewlai
  3

• Error in `stringr::str_split_fixed()`:

  #15 opened a year ago by vcoyne1
  3

• Spectronaut template not working

  #13 opened a year ago by educhicano
  3

• removing decoy and contaminants

  #12 opened a year ago by kamalmdmostafa
  0

• Error in UseMethod("mutate")

  #11 opened 2 years ago by vcoyne1
  1

• Question about "Filter" commands

  #10 opened 2 years ago by enonimos
  2

• Calculating the contrast of two genotypes "vs"

  #9 opened 2 years ago by AkilaWijerathnaYapa
  1

• Question concerning statistics

  #6 opened 2 years ago by lananh-ngn
  1

• Coding of target and control groups in DEA

  #5 opened 2 years ago by hberger
  5

• test for interaction effects?

  #4 opened 2 years ago by jgn301
  3

• support for Biognosys Spectronaut version 13

  #2 opened 3 years ago by zh-zhang1984
  1

• Encyclopedia proteingroups etc.

  #1 opened 3 years ago by szabzola
  3

• Specific label name in volcano plots

  #3 opened 3 years ago by lananh-ngn
  3