lazear/sage

Issues

• diaPASEF first tests

  #123 opened 6 months ago by KlemensFroehlich
  11

• Memory consumption for extremely large search spaces

  #97 opened 10 months ago by grosenberger
  5

• [Feature Request] Sage output as a pepXML file

  #130 opened 4 months ago by sciordia
  5

• Using Sage for HLA Peptides

  #139 opened 2 months ago by theGreatHerrLebert
  2

• Random questions regarding splitting mgfs, specifying charge states, multiple possible precursors....

  #138 opened 3 months ago by gsaxena888
  1

• Unintuitive behaviour of the 'precursor_charge' setting in the .json config.

  #137 opened 3 months ago by MatteoLacki
  1

• allowed customised mass offset for open search?

  #136 opened 3 months ago by daichengxin
  0

• Decharged precursors and tolerance

  #132 opened 4 months ago by glormph
  7

• Input handling guardrails and glob expansion

  #133 opened 4 months ago by acesnik
  2

• fatal runtime error: stack overflow

  #131 opened 4 months ago by picciama
  1

• Segmentation fault (core dumped)

  #129 opened 4 months ago by colinliuzelin
  1

• Sage TSV output notes

  #127 opened 5 months ago by douweschulte
  4

• How does the static modification work when the initial generation of fragments and peptides?

  #126 opened 5 months ago by Wonyeop
  3

• Search using parquet files

  #125 opened 5 months ago by prvst
  4

• No IMS model ran mzML input

  #117 opened 5 months ago by patrick-willems
  5

• Can't read mgfs with upper cases in path

  #124 opened 5 months ago by jens-decker-bruker
  0

• Differences between TSV and Parquet results.sage output

  #118 opened 6 months ago by RalfG
  2

• entrapment FASTA

  #121 opened 6 months ago by KlemensFroehlich
  3

• thread panicked

  #122 opened 6 months ago by KlemensFroehlich
  3

• Support for tims tof data

  #73 opened a year ago by tomthun
  13

• TMT11 quantification on MS2 level?

  #82 opened 7 months ago by ningzhibin
  5

• Bruker Support

  #116 opened 7 months ago by treitpeter
  1

• Support for Fragment-able Modifications

  #115 opened 7 months ago by FriedLabJHU
  2

• Feature request: move mod input, mod runner, mod output into sage_core

  #114 opened 7 months ago by neonelemental
  10

• Support for feature extraction

  #81 opened a year ago by TheLostLambda
  7

• Support for mgf

  #112 opened 8 months ago by ypriverol
  2

• Feature request: peptide position information in results

  #110 opened 8 months ago by kabalak
  1

• Supporting MGF format

  #104 opened 8 months ago by yujinjeong2
  1

• Interfacing Sage results to protein group FDR package

  #102 opened 9 months ago by MatthewThe
  5

• .pin file not opening in percolator

  #107 opened 9 months ago by jordancurrie
  4

• Semi-enzymatic digests not completing?

  #106 opened 9 months ago by hbarsnes
  1

• FDR: Peptide_q-values above 1% and MS2Rescore compatible

  #105 opened 9 months ago by Guitou1
  5

• Is support for SILAC or reductive dimethylation quantification planned

  #89 opened a year ago by radusuciu
  2

• Python bindings for sage-core library

  #100 opened 10 months ago by theGreatHerrLebert
  7

• Unspecific HLA datasets

  #99 opened 10 months ago by karimwh
  3

• Semi-enzymatic peptide generation

  #92 opened 10 months ago by FriedLabJHU
  0

• Restrict enzyme in multiple AA

  #90 opened 10 months ago by ypriverol
  4

• Single charged precursors?

  #95 opened 10 months ago by patrick-willems
  2

• Making spectral library by searching GPF-DIA files with Sage and other questions

  #96 opened 10 months ago by k-p4
  2

• Verbose, the process of running

  #86 opened a year ago by ypriverol
  9

• Documentation/specification of precursor charge range

  #85 opened a year ago by jpfeuffer
  2

• Wide open modification search with TMT level 2

  #84 opened a year ago by ludgergoeminne
  2

• Redundancy between --fasta CLI argument and required fasta path in config file?

  #83 opened a year ago by j-berg
  2

• Support compiling to WebAssembly

  #77 opened a year ago by TheLostLambda
  4

• Supports for cross-linking searching?

  #79 opened a year ago by yanze039
  1

• LFQ output is empty

  #74 opened a year ago by tomthun
  11

• Question: no search results on small mzMLs

  #78 opened a year ago by timosachsenberg
  5

• Convert mgf to mzml

  #76 opened a year ago by gsaxena888
  8

• Output more than a single peptide for a scan

  #75 opened a year ago by gsaxena888
  1

• Problem analysing tims-tof data

  #72 opened a year ago by tomthun
  3