Ticket #495 (closed: fixed)

Opened 3 years ago

Last modified 20 months ago

Isobaric label support

Reported by: fredrik Owned by: fredrik
Milestone: Proteios SE 2.6 Keywords:
Cc:

Description

Support for calculating ratios of reporter ions from isobaric labels like ITRAQ and TMT should be added

Change History

comment:1 Changed 3 years ago by fredrik

(In [3007]) Refs #495. Rough version that will add ITRAQ reporter ions to the protein assembly report.

comment:2 Changed 3 years ago by fredrik

(In [3051]) Refs #495. Added possibility to select isobaric labels to protein assembly. Refs #484. Reformatted the protein assembly output.

comment:3 Changed 3 years ago by fredrik

(In [3056]) Refs #495. Edited debug output.

comment:4 Changed 3 years ago by fredrik

(In [3057]) Refs #495. Further edited debug info.

comment:5 Changed 3 years ago by fredrik

(In [3058]) Refs #495. Corrected protein assembly to support multiple files (hopefully)

comment:6 Changed 3 years ago by fredrik

(In [3059]) Refs #495, refs #484. Corrected protein assembly when merging entries

comment:7 Changed 3 years ago by fredrik

(In [3060]) Refs #495, refs #484. Not allowing gel external ids to be wrongly set anymore.

comment:8 Changed 3 years ago by fredrik

(In [3062]) Refs #495. Corrected bug introduced when running without labels. Also fixed output formatting

comment:9 Changed 3 years ago by fredrik

  • Status changed from new to assigned
  • severity changed from 16 to 4

The report seems to be functional

comment:10 Changed 3 years ago by fredrik

(In [3064]) Refs #495, refs #484. New protein hits that are generated by the report will be grouped. One will be 'primary combined', and the others will be pointing to the that one.

comment:11 Changed 3 years ago by fredrik

(In [3066]) Refs #495, refs #484. Writing out spectrum ids in report, to allow for tracking of hits.

comment:12 Changed 3 years ago by fredrik

  • Status changed from assigned to closed
  • Resolution set to fixed

(In [3081]) Fixes #495. Renamed iTRAQ label to specify the type. Report seems to be funtional.

comment:13 Changed 2 years ago by fredrik

(In [3462]) Refs #495. Allowing selection of usage of only HCD reporters for quantitation.

comment:14 Changed 20 months ago by fredrik

(In [3734]) Refs #495. Added possibility to use mzML spectra for isobaric label quantification with selection of HCD for quantification.

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